-- dump date 20120504_162008 -- class Genbank::misc_feature -- table misc_feature_note -- id note 317655000001 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 317655000002 MobA/MobL family; Region: MobA_MobL; pfam03389 317655000003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000004 Family description; Region: UvrD_C_2; cl15862 317655000005 Conjugal transfer protein TraD; Region: TraD; cl05753 317655000006 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 317655000007 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655000008 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 317655000009 active site 317655000010 phosphorylation site [posttranslational modification] 317655000011 intermolecular recognition site; other site 317655000012 dimerization interface [polypeptide binding]; other site 317655000013 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 317655000014 Walker A motif; other site 317655000015 ATP binding site [chemical binding]; other site 317655000016 Walker B motif; other site 317655000017 arginine finger; other site 317655000018 Helix-turn-helix domains; Region: HTH; cl00088 317655000019 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 317655000020 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 317655000021 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG3372 317655000022 This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found...; Region: H2MP_Cyano-H2up; cd06063 317655000023 nickel binding site [ion binding]; other site 317655000024 NifU-like domain; Region: NifU; cl00484 317655000025 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 317655000026 iron-sulfur cluster [ion binding]; other site 317655000027 [2Fe-2S] cluster binding site [ion binding]; other site 317655000028 NHL repeat; Region: NHL; pfam01436 317655000029 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 317655000030 Acylphosphatase; Region: Acylphosphatase; cl00551 317655000031 HypF finger; Region: zf-HYPF; pfam07503 317655000032 HypF finger; Region: zf-HYPF; pfam07503 317655000033 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 317655000034 HupF/HypC family; Region: HupF_HypC; cl00394 317655000035 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 317655000036 dimer interface [polypeptide binding]; other site 317655000037 active site 317655000038 Hydrogenase formation hypA family; Region: HypD; cl12072 317655000039 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 317655000040 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 317655000041 dimerization interface [polypeptide binding]; other site 317655000042 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 317655000043 ATP binding site [chemical binding]; other site 317655000044 High-affinity nickel-transport protein; Region: NicO; cl00964 317655000045 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 317655000046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000047 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 317655000048 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 317655000049 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 317655000050 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000051 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000052 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 317655000053 DnaA N-terminal domain; Region: DnaA_N; pfam11638 317655000054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000055 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 317655000056 DnaA box-binding interface [nucleotide binding]; other site 317655000057 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655000058 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 317655000059 putative C-terminal domain interface [polypeptide binding]; other site 317655000060 putative GSH binding site (G-site) [chemical binding]; other site 317655000061 putative dimer interface [polypeptide binding]; other site 317655000062 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 317655000063 putative substrate binding pocket (H-site) [chemical binding]; other site 317655000064 putative N-terminal domain interface [polypeptide binding]; other site 317655000065 Predicted GTPase [General function prediction only]; Region: COG0218 317655000066 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 317655000067 G1 box; other site 317655000068 GTP/Mg2+ binding site [chemical binding]; other site 317655000069 Switch I region; other site 317655000070 G2 box; other site 317655000071 G3 box; other site 317655000072 Switch II region; other site 317655000073 G4 box; other site 317655000074 G5 box; other site 317655000075 membrane protein insertase; Provisional; Region: PRK01318 317655000076 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 317655000077 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 317655000078 Haemolytic domain; Region: Haemolytic; cl00506 317655000079 Ribonuclease P; Region: Ribonuclease_P; cl00457 317655000080 Entericidin EcnA/B family; Region: Entericidin; cl02322 317655000081 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 317655000082 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655000083 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 317655000084 C-terminal domain interface [polypeptide binding]; other site 317655000085 GSH binding site (G-site) [chemical binding]; other site 317655000086 dimer interface [polypeptide binding]; other site 317655000087 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 317655000088 N-terminal domain interface [polypeptide binding]; other site 317655000089 dimer interface [polypeptide binding]; other site 317655000090 substrate binding pocket (H-site) [chemical binding]; other site 317655000091 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 317655000092 dimer interface [polypeptide binding]; other site 317655000093 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655000094 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 317655000095 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 317655000096 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655000097 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655000098 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 317655000099 putative C-terminal domain interface [polypeptide binding]; other site 317655000100 putative GSH binding site (G-site) [chemical binding]; other site 317655000101 putative dimer interface [polypeptide binding]; other site 317655000102 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 317655000103 dimer interface [polypeptide binding]; other site 317655000104 N-terminal domain interface [polypeptide binding]; other site 317655000105 putative substrate binding pocket (H-site) [chemical binding]; other site 317655000106 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 317655000107 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 317655000108 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 317655000109 putative C-terminal domain interface [polypeptide binding]; other site 317655000110 putative GSH binding site (G-site) [chemical binding]; other site 317655000111 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655000112 putative dimer interface [polypeptide binding]; other site 317655000113 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 317655000114 dimer interface [polypeptide binding]; other site 317655000115 N-terminal domain interface [polypeptide binding]; other site 317655000116 putative substrate binding pocket (H-site) [chemical binding]; other site 317655000117 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655000118 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; cl12031 317655000119 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 317655000120 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 317655000121 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655000122 Helix-turn-helix domains; Region: HTH; cl00088 317655000123 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655000124 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 317655000125 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 317655000126 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000127 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 317655000128 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 317655000129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655000130 metal binding site [ion binding]; metal-binding site 317655000131 active site 317655000132 I-site; other site 317655000133 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 317655000134 Peptidase family M23; Region: Peptidase_M23; pfam01551 317655000135 Phospholipid methyltransferase; Region: PEMT; cl00763 317655000136 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655000137 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655000138 N-terminal plug; other site 317655000139 ligand-binding site [chemical binding]; other site 317655000140 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 317655000141 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 317655000142 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655000143 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655000144 N-terminal plug; other site 317655000145 ligand-binding site [chemical binding]; other site 317655000146 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 317655000147 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 317655000148 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 317655000149 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 317655000150 conserved cys residue [active] 317655000151 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 317655000152 dimerization interface [polypeptide binding]; other site 317655000153 putative DNA binding site [nucleotide binding]; other site 317655000154 putative Zn2+ binding site [ion binding]; other site 317655000155 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 317655000156 S-adenosylmethionine binding site [chemical binding]; other site 317655000157 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 317655000158 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 317655000159 FAD binding site [chemical binding]; other site 317655000160 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 317655000161 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 317655000162 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 317655000163 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 317655000164 substrate binding pocket [chemical binding]; other site 317655000165 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 317655000166 B12 binding site [chemical binding]; other site 317655000167 cobalt ligand [ion binding]; other site 317655000168 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 317655000169 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 317655000170 Membrane fusogenic activity; Region: BMFP; cl01115 317655000171 TspO/MBR family; Region: TspO_MBR; cl01379 317655000172 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 317655000173 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 317655000174 RNA binding surface [nucleotide binding]; other site 317655000175 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; cl16911 317655000176 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 317655000177 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 317655000178 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 317655000179 DsbD alpha interface [polypeptide binding]; other site 317655000180 catalytic residues [active] 317655000181 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 317655000182 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 317655000183 Sulfatase; Region: Sulfatase; cl10460 317655000184 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 317655000185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000186 Helix-turn-helix domains; Region: HTH; cl00088 317655000187 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 317655000188 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 317655000189 homodimer interface [polypeptide binding]; other site 317655000190 substrate-cofactor binding pocket; other site 317655000191 catalytic residue [active] 317655000192 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 317655000193 active site 317655000194 DNA binding site [nucleotide binding] 317655000195 Int/Topo IB signature motif; other site 317655000196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000197 AAA domain; Region: AAA_27; pfam13514 317655000198 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 317655000199 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 317655000200 active site 317655000201 metal binding site [ion binding]; metal-binding site 317655000202 DNA binding site [nucleotide binding] 317655000203 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 317655000204 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 317655000205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000206 Family description; Region: UvrD_C_2; cl15862 317655000207 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 317655000208 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 317655000209 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 317655000210 Putative transposase; Region: Y2_Tnp; pfam04986 317655000211 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 317655000212 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 317655000213 Int/Topo IB signature motif; other site 317655000214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655000215 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 317655000216 catalytic residues [active] 317655000217 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 317655000218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655000219 Helix-turn-helix domains; Region: HTH; cl00088 317655000220 short chain dehydrogenase; Provisional; Region: PRK06180 317655000221 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 317655000222 NADP binding site [chemical binding]; other site 317655000223 active site 317655000224 steroid binding site; other site 317655000225 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 317655000226 OsmC-like protein; Region: OsmC; cl00767 317655000227 Epoxide hydrolase N terminus; Region: EHN; pfam06441 317655000228 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 317655000229 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 317655000230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000231 NAD(P) binding site [chemical binding]; other site 317655000232 active site 317655000233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655000234 Helix-turn-helix domains; Region: HTH; cl00088 317655000235 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 317655000236 putative effector binding pocket; other site 317655000237 putative dimerization interface [polypeptide binding]; other site 317655000238 Helix-turn-helix domains; Region: HTH; cl00088 317655000239 oxidoreductase; Provisional; Region: PRK12742 317655000240 classical (c) SDRs; Region: SDR_c; cd05233 317655000241 NAD(P) binding site [chemical binding]; other site 317655000242 active site 317655000243 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 317655000244 Tetratricopeptide repeat; Region: TPR_9; pfam13371 317655000245 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655000246 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 317655000247 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 317655000248 tetramer (dimer of dimers) interface [polypeptide binding]; other site 317655000249 active site 317655000250 dimer interface [polypeptide binding]; other site 317655000251 Helix-turn-helix domains; Region: HTH; cl00088 317655000252 Helix-turn-helix domains; Region: HTH; cl00088 317655000253 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655000254 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 317655000255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000256 NAD(P) binding site [chemical binding]; other site 317655000257 active site 317655000258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655000259 Helix-turn-helix domains; Region: HTH; cl00088 317655000260 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 317655000261 dimerization interface [polypeptide binding]; other site 317655000262 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 317655000263 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 317655000264 C-terminal domain interface [polypeptide binding]; other site 317655000265 GSH binding site (G-site) [chemical binding]; other site 317655000266 dimer interface [polypeptide binding]; other site 317655000267 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 317655000268 dimer interface [polypeptide binding]; other site 317655000269 N-terminal domain interface [polypeptide binding]; other site 317655000270 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 317655000271 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 317655000272 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 317655000273 Electron transfer DM13; Region: DM13; cl02735 317655000274 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655000275 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 317655000276 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 317655000277 Domain of unknown function (DUF336); Region: DUF336; cl01249 317655000278 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 317655000279 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 317655000280 putative NAD(P) binding site [chemical binding]; other site 317655000281 dimer interface [polypeptide binding]; other site 317655000282 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 317655000283 Moco binding site; other site 317655000284 metal coordination site [ion binding]; other site 317655000285 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 317655000286 FAD binding pocket [chemical binding]; other site 317655000287 conserved FAD binding motif [chemical binding]; other site 317655000288 phosphate binding motif [ion binding]; other site 317655000289 beta-alpha-beta structure motif; other site 317655000290 NAD binding pocket [chemical binding]; other site 317655000291 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 317655000292 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 317655000293 dimer interface [polypeptide binding]; other site 317655000294 active site 317655000295 Domain of unknown function (DUF427); Region: DUF427; cl00998 317655000296 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 317655000297 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 317655000298 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 317655000299 active site 317655000300 HIGH motif; other site 317655000301 KMSK motif region; other site 317655000302 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 317655000303 tRNA binding surface [nucleotide binding]; other site 317655000304 anticodon binding site; other site 317655000305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000306 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 317655000307 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 317655000308 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655000309 Helix-turn-helix domains; Region: HTH; cl00088 317655000310 Protein of unknown function, DUF417; Region: DUF417; cl01162 317655000311 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 317655000312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655000313 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655000314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655000315 Helix-turn-helix domains; Region: HTH; cl00088 317655000316 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 317655000317 putative effector binding pocket; other site 317655000318 dimerization interface [polypeptide binding]; other site 317655000319 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 317655000320 putative catalytic residues [active] 317655000321 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 317655000322 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 317655000323 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 317655000324 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 317655000325 GSH binding site [chemical binding]; other site 317655000326 catalytic residues [active] 317655000327 Cation efflux family; Region: Cation_efflux; cl00316 317655000328 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 317655000329 homotrimer interaction site [polypeptide binding]; other site 317655000330 putative active site [active] 317655000331 Cytochrome c; Region: Cytochrom_C; cl11414 317655000332 Staphylococcal nuclease homologues; Region: SNc; smart00318 317655000333 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 317655000334 Catalytic site; other site 317655000335 Excalibur calcium-binding domain; Region: Excalibur; cl05460 317655000336 MobA/MobL family; Region: MobA_MobL; pfam03389 317655000337 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; cl16911 317655000338 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 317655000339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655000340 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 317655000341 S-adenosylmethionine binding site [chemical binding]; other site 317655000342 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 317655000343 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 317655000344 active site residue [active] 317655000345 Nitrogen regulatory protein P-II; Region: P-II; cl00412 317655000346 Nitrogen regulatory protein P-II; Region: P-II; smart00938 317655000347 glutamine synthetase; Provisional; Region: glnA; PRK09469 317655000348 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 317655000349 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 317655000350 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 317655000351 non-specific DNA binding site [nucleotide binding]; other site 317655000352 salt bridge; other site 317655000353 sequence-specific DNA binding site [nucleotide binding]; other site 317655000354 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 317655000355 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 317655000356 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655000357 NAD binding site [chemical binding]; other site 317655000358 catalytic residues [active] 317655000359 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 317655000360 heterotetramer interface [polypeptide binding]; other site 317655000361 active site pocket [active] 317655000362 cleavage site 317655000363 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 317655000364 catalytic residues [active] 317655000365 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 317655000366 Family description; Region: UvrD_C_2; cl15862 317655000367 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 317655000368 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 317655000369 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 317655000370 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 317655000371 Substrate binding site; other site 317655000372 metal-binding site 317655000373 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655000374 Phosphotransferase enzyme family; Region: APH; pfam01636 317655000375 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 317655000376 PAS fold; Region: PAS_7; pfam12860 317655000377 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 317655000378 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 317655000379 dimer interface [polypeptide binding]; other site 317655000380 phosphorylation site [posttranslational modification] 317655000381 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 317655000382 ATP binding site [chemical binding]; other site 317655000383 Mg2+ binding site [ion binding]; other site 317655000384 G-X-G motif; other site 317655000385 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 317655000386 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 317655000387 oligomerization interface [polypeptide binding]; other site 317655000388 active site 317655000389 NAD+ binding site [chemical binding]; other site 317655000390 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 317655000391 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 317655000392 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 317655000393 catalytic triad [active] 317655000394 dimer interface [polypeptide binding]; other site 317655000395 AMP nucleosidase; Provisional; Region: PRK08292 317655000396 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 317655000397 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 317655000398 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 317655000399 Clp amino terminal domain; Region: Clp_N; pfam02861 317655000400 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 317655000401 Walker A motif; other site 317655000402 ATP binding site [chemical binding]; other site 317655000403 Walker B motif; other site 317655000404 arginine finger; other site 317655000405 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 317655000406 Walker A motif; other site 317655000407 ATP binding site [chemical binding]; other site 317655000408 Walker B motif; other site 317655000409 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 317655000410 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 317655000411 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000412 aminodeoxychorismate synthase; Provisional; Region: PRK07508 317655000413 chorismate binding enzyme; Region: Chorismate_bind; cl10555 317655000414 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 317655000415 substrate-cofactor binding pocket; other site 317655000416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655000417 homodimer interface [polypeptide binding]; other site 317655000418 catalytic residue [active] 317655000419 aspartate aminotransferase; Provisional; Region: PRK05764 317655000420 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 317655000421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655000422 homodimer interface [polypeptide binding]; other site 317655000423 catalytic residue [active] 317655000424 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 317655000425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655000426 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 317655000427 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655000428 CoA-ligase; Region: Ligase_CoA; cl02894 317655000429 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 317655000430 Ligand binding site [chemical binding]; other site 317655000431 Electron transfer flavoprotein domain; Region: ETF; pfam01012 317655000432 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 317655000433 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 317655000434 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 317655000435 Domain of unknown function (DUF389); Region: DUF389; cl00781 317655000436 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655000437 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655000438 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655000439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000440 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 317655000441 active site 317655000442 catalytic site [active] 317655000443 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 317655000444 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 317655000445 active site 317655000446 catalytic site [active] 317655000447 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 317655000448 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 317655000449 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 317655000450 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 317655000451 putative molybdopterin cofactor binding site [chemical binding]; other site 317655000452 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 317655000453 putative molybdopterin cofactor binding site; other site 317655000454 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 317655000455 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 317655000456 GTP binding site; other site 317655000457 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 317655000458 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 317655000459 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 317655000460 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 317655000461 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 317655000462 Dehydratase family; Region: ILVD_EDD; cl00340 317655000463 6-phosphogluconate dehydratase; Region: edd; TIGR01196 317655000464 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 317655000465 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 317655000466 active site 317655000467 intersubunit interface [polypeptide binding]; other site 317655000468 catalytic residue [active] 317655000469 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 317655000470 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655000471 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 317655000472 putative acyl-acceptor binding pocket; other site 317655000473 glycerol-3-phosphate acyltransferase; Validated; Region: PRK03355 317655000474 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 317655000475 putative acyl-acceptor binding pocket; other site 317655000476 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 317655000477 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 317655000478 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 317655000479 active site 317655000480 nucleophile elbow; other site 317655000481 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 317655000482 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; cl12031 317655000483 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655000484 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; cl12031 317655000485 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 317655000486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000487 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 317655000488 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 317655000489 catalytic residues [active] 317655000490 argininosuccinate lyase; Provisional; Region: PRK00855 317655000491 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 317655000492 active sites [active] 317655000493 tetramer interface [polypeptide binding]; other site 317655000494 diaminopimelate decarboxylase; Region: lysA; TIGR01048 317655000495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 317655000496 active site 317655000497 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655000498 substrate binding site [chemical binding]; other site 317655000499 catalytic residues [active] 317655000500 dimer interface [polypeptide binding]; other site 317655000501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000502 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 317655000503 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 317655000504 Walker A motif; other site 317655000505 ATP binding site [chemical binding]; other site 317655000506 Walker B motif; other site 317655000507 arginine finger; other site 317655000508 Helix-turn-helix domains; Region: HTH; cl00088 317655000509 phage shock protein A; Region: phageshock_pspA; TIGR02977 317655000510 Phage shock protein B; Region: PspB; cl05946 317655000511 phage shock protein C; Region: phageshock_pspC; TIGR02978 317655000512 PspC domain; Region: PspC; cl00864 317655000513 Fe-S metabolism associated domain; Region: SufE; cl00951 317655000514 hypothetical protein; Provisional; Region: PRK09133 317655000515 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 317655000516 putative metal binding site [ion binding]; other site 317655000517 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 317655000518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 317655000519 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 317655000520 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000521 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000522 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 317655000523 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000524 AMP-binding enzyme; Region: AMP-binding; cl15778 317655000525 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 317655000526 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 317655000527 putative catalytic residue [active] 317655000528 enoyl-CoA hydratase; Provisional; Region: PRK07509 317655000529 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 317655000530 substrate binding site [chemical binding]; other site 317655000531 oxyanion hole (OAH) forming residues; other site 317655000532 trimer interface [polypeptide binding]; other site 317655000533 Winged helix-turn helix; Region: HTH_29; pfam13551 317655000534 Integrase core domain; Region: rve; cl01316 317655000535 Integrase core domain; Region: rve_3; cl15866 317655000536 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655000537 O-Antigen ligase; Region: Wzy_C; cl04850 317655000538 O-Antigen ligase; Region: Wzy_C; cl04850 317655000539 PEP-CTERM/exosortase 1-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 317655000540 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 317655000541 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 317655000542 Catalytic site [active] 317655000543 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 317655000544 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 317655000545 dimer interface [polypeptide binding]; other site 317655000546 putative CheW interface [polypeptide binding]; other site 317655000547 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 317655000548 amphipathic channel; other site 317655000549 Asn-Pro-Ala signature motifs; other site 317655000550 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 317655000551 active site 317655000552 tetramer interface; other site 317655000553 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655000554 ligand binding site [chemical binding]; other site 317655000555 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 317655000556 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 317655000557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655000558 metal binding site [ion binding]; metal-binding site 317655000559 active site 317655000560 I-site; other site 317655000561 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 317655000562 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 317655000563 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 317655000564 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 317655000565 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 317655000566 23S rRNA interface [nucleotide binding]; other site 317655000567 L3 interface [polypeptide binding]; other site 317655000568 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 317655000569 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 317655000570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000571 NAD(P) binding site [chemical binding]; other site 317655000572 active site 317655000573 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 317655000574 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 317655000575 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 317655000576 dimerization interface 3.5A [polypeptide binding]; other site 317655000577 active site 317655000578 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 317655000579 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 317655000580 putative active site [active] 317655000581 substrate binding site [chemical binding]; other site 317655000582 putative cosubstrate binding site; other site 317655000583 catalytic site [active] 317655000584 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 317655000585 substrate binding site [chemical binding]; other site 317655000586 recombination protein RecR; Reviewed; Region: recR; PRK00076 317655000587 RecR protein; Region: RecR; pfam02132 317655000588 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 317655000589 putative active site [active] 317655000590 putative metal-binding site [ion binding]; other site 317655000591 tetramer interface [polypeptide binding]; other site 317655000592 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 317655000593 active site 317655000594 catalytic residues [active] 317655000595 metal binding site [ion binding]; metal-binding site 317655000596 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 317655000597 dimer interface [polypeptide binding]; other site 317655000598 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 317655000599 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 317655000600 Helix-turn-helix domains; Region: HTH; cl00088 317655000601 HrcA protein C terminal domain; Region: HrcA; pfam01628 317655000602 ribonuclease PH; Reviewed; Region: rph; PRK00173 317655000603 Ribonuclease PH; Region: RNase_PH_bact; cd11362 317655000604 hexamer interface [polypeptide binding]; other site 317655000605 active site 317655000606 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 317655000607 active site 317655000608 dimerization interface [polypeptide binding]; other site 317655000609 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 317655000610 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 317655000611 FeS/SAM binding site; other site 317655000612 HemN C-terminal domain; Region: HemN_C; pfam06969 317655000613 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 317655000614 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 317655000615 active site 317655000616 DNA binding site [nucleotide binding] 317655000617 Int/Topo IB signature motif; other site 317655000618 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 317655000619 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 317655000620 glutathione synthetase; Provisional; Region: PRK05246 317655000621 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 317655000622 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655000623 Restriction endonuclease; Region: Mrr_cat; cl00516 317655000624 Predicted methyltransferases [General function prediction only]; Region: COG0313 317655000625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655000626 active site 317655000627 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 317655000628 putative ligand binding site [chemical binding]; other site 317655000629 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 317655000630 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 317655000631 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 317655000632 NRDE protein; Region: NRDE; cl01315 317655000633 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 317655000634 Uncharacterized conserved protein [Function unknown]; Region: COG3586 317655000635 Helix-turn-helix domains; Region: HTH; cl00088 317655000636 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 317655000637 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 317655000638 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 317655000639 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 317655000640 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655000641 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 317655000642 excinuclease ABC subunit B; Provisional; Region: PRK05298 317655000643 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 317655000644 ATP binding site [chemical binding]; other site 317655000645 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 317655000646 nucleotide binding region [chemical binding]; other site 317655000647 ATP-binding site [chemical binding]; other site 317655000648 Ultra-violet resistance protein B; Region: UvrB; pfam12344 317655000649 UvrB/uvrC motif; Region: UVR; pfam02151 317655000650 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 317655000651 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 317655000652 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655000653 Phosphopantetheine attachment site; Region: PP-binding; cl09936 317655000654 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 317655000655 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 317655000656 dimer interface [polypeptide binding]; other site 317655000657 active site 317655000658 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655000659 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; cl12031 317655000660 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 317655000661 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 317655000662 RNA polymerase sigma factor; Provisional; Region: PRK12547 317655000663 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655000664 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 317655000665 DNA binding residues [nucleotide binding] 317655000666 Sensors of blue-light using FAD; Region: BLUF; cl04855 317655000667 RNA polymerase sigma factor; Provisional; Region: PRK12547 317655000668 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655000669 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 317655000670 DNA binding residues [nucleotide binding] 317655000671 two-component response regulator; Provisional; Region: PRK09191 317655000672 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655000673 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 317655000674 active site 317655000675 phosphorylation site [posttranslational modification] 317655000676 intermolecular recognition site; other site 317655000677 dimerization interface [polypeptide binding]; other site 317655000678 GAF domain; Region: GAF; cl15785 317655000679 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 317655000680 putative active site [active] 317655000681 heme pocket [chemical binding]; other site 317655000682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 317655000683 Histidine kinase; Region: HisKA_2; cl06527 317655000684 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 317655000685 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655000686 ATP-dependent DNA ligase; Validated; Region: PRK09247 317655000687 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 317655000688 active site 317655000689 DNA binding site [nucleotide binding] 317655000690 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 317655000691 DNA binding site [nucleotide binding] 317655000692 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 317655000693 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 317655000694 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 317655000695 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 317655000696 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 317655000697 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 317655000698 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 317655000699 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 317655000700 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 317655000701 Cation efflux family; Region: Cation_efflux; cl00316 317655000702 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 317655000703 putative homodimer interface [polypeptide binding]; other site 317655000704 putative homotetramer interface [polypeptide binding]; other site 317655000705 putative metal binding site [ion binding]; other site 317655000706 putative homodimer-homodimer interface [polypeptide binding]; other site 317655000707 putative allosteric switch controlling residues; other site 317655000708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655000709 classical (c) SDRs; Region: SDR_c; cd05233 317655000710 NAD(P) binding site [chemical binding]; other site 317655000711 active site 317655000712 enoyl-CoA hydratase; Provisional; Region: PRK09245 317655000713 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 317655000714 substrate binding site [chemical binding]; other site 317655000715 oxyanion hole (OAH) forming residues; other site 317655000716 trimer interface [polypeptide binding]; other site 317655000717 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 317655000718 Sulfatase; Region: Sulfatase; cl10460 317655000719 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 317655000720 Helix-turn-helix domains; Region: HTH; cl00088 317655000721 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 317655000722 Sulfatase; Region: Sulfatase; cl10460 317655000723 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655000724 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655000725 DNA binding site [nucleotide binding] 317655000726 domain linker motif; other site 317655000727 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 317655000728 putative dimerization interface [polypeptide binding]; other site 317655000729 putative ligand binding site [chemical binding]; other site 317655000730 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 317655000731 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 317655000732 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 317655000733 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 317655000734 beta-phosphoglucomutase; Region: bPGM; TIGR01990 317655000735 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 317655000736 motif II; other site 317655000737 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655000738 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655000739 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 317655000740 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 317655000741 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 317655000742 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 317655000743 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 317655000744 putative active site [active] 317655000745 metal binding site [ion binding]; metal-binding site 317655000746 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; cl12031 317655000747 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 317655000748 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 317655000749 non-specific DNA binding site [nucleotide binding]; other site 317655000750 salt bridge; other site 317655000751 sequence-specific DNA binding site [nucleotide binding]; other site 317655000752 Autoinducer binding domain; Region: Autoind_bind; pfam03472 317655000753 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 317655000754 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 317655000755 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 317655000756 non-specific DNA binding site [nucleotide binding]; other site 317655000757 salt bridge; other site 317655000758 sequence-specific DNA binding site [nucleotide binding]; other site 317655000759 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655000760 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655000761 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655000762 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 317655000763 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 317655000764 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 317655000765 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 317655000766 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 317655000767 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 317655000768 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 317655000769 Walker A motif; other site 317655000770 ATP binding site [chemical binding]; other site 317655000771 Walker B motif; other site 317655000772 general secretion pathway protein F; Region: GspF; TIGR02120 317655000773 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655000774 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655000775 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 317655000776 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 317655000777 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 317655000778 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 317655000779 general secretion pathway protein I; Region: gspI; TIGR01707 317655000780 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 317655000781 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 317655000782 general secretion pathway protein J; Region: gspJ; TIGR01711 317655000783 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 317655000784 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 317655000785 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 317655000786 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 317655000787 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 317655000788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655000789 ligand binding site [chemical binding]; other site 317655000790 translocation protein TolB; Provisional; Region: tolB; PRK05137 317655000791 TolB amino-terminal domain; Region: TolB_N; cl00639 317655000792 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655000793 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655000794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655000795 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 317655000796 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 317655000797 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 317655000798 active site 317655000799 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 317655000800 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 317655000801 Walker A motif; other site 317655000802 ATP binding site [chemical binding]; other site 317655000803 Walker B motif; other site 317655000804 arginine finger; other site 317655000805 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 317655000806 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 317655000807 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 317655000808 RuvA N terminal domain; Region: RuvA_N; pfam01330 317655000809 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 317655000810 active site 317655000811 putative DNA-binding cleft [nucleotide binding]; other site 317655000812 dimer interface [polypeptide binding]; other site 317655000813 Transcriptional regulator; Region: Transcrip_reg; cl00361 317655000814 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 317655000815 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 317655000816 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 317655000817 pyruvate kinase; Provisional; Region: PRK06247 317655000818 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; cl09155 317655000819 domain interfaces; other site 317655000820 active site 317655000821 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 317655000822 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 317655000823 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655000824 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 317655000825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655000826 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 317655000827 ligand binding site [chemical binding]; other site 317655000828 flexible hinge region; other site 317655000829 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 317655000830 ligand binding site [chemical binding]; other site 317655000831 flexible hinge region; other site 317655000832 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 317655000833 4Fe-4S binding domain; Region: Fer4; cl02805 317655000834 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 317655000835 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 317655000836 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 317655000837 active site 317655000838 metal binding site [ion binding]; metal-binding site 317655000839 hexamer interface [polypeptide binding]; other site 317655000840 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 317655000841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655000842 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 317655000843 putative active site [active] 317655000844 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 317655000845 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655000846 active site 317655000847 HIGH motif; other site 317655000848 nucleotide binding site [chemical binding]; other site 317655000849 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655000850 active site 317655000851 KMSKS motif; other site 317655000852 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 317655000853 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 317655000854 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655000855 Surface antigen; Region: Bac_surface_Ag; cl03097 317655000856 CHASE2 domain; Region: CHASE2; cl01732 317655000857 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 317655000858 cyclase homology domain; Region: CHD; cd07302 317655000859 nucleotidyl binding site; other site 317655000860 metal binding site [ion binding]; metal-binding site 317655000861 dimer interface [polypeptide binding]; other site 317655000862 CHAT domain; Region: CHAT; pfam12770 317655000863 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 317655000864 BolA-like protein; Region: BolA; cl00386 317655000865 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 317655000866 putative GSH binding site [chemical binding]; other site 317655000867 catalytic residues [active] 317655000868 Helix-turn-helix domains; Region: HTH; cl00088 317655000869 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 317655000870 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655000871 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 317655000872 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 317655000873 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 317655000874 NAD(P) binding site [chemical binding]; other site 317655000875 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655000876 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 317655000877 Helix-turn-helix domains; Region: HTH; cl00088 317655000878 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 317655000879 dimerization interface [polypeptide binding]; other site 317655000880 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 317655000881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655000882 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655000883 Protein of unknown function, DUF481; Region: DUF481; cl01213 317655000884 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_6; cd07242 317655000885 putative dimer interface [polypeptide binding]; other site 317655000886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655000887 ligand binding site [chemical binding]; other site 317655000888 Zn binding site [ion binding]; other site 317655000889 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 317655000890 hypothetical protein; Provisional; Region: PRK06446 317655000891 metal binding site [ion binding]; metal-binding site 317655000892 dimer interface [polypeptide binding]; other site 317655000893 classical (c) SDRs; Region: SDR_c; cd05233 317655000894 NAD(P) binding site [chemical binding]; other site 317655000895 active site 317655000896 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 317655000897 Fumarase C-terminus; Region: Fumerase_C; cl00795 317655000898 MerC mercury resistance protein; Region: MerC; cl03934 317655000899 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 317655000900 metal binding site 2 [ion binding]; metal-binding site 317655000901 putative DNA binding helix; other site 317655000902 metal binding site 1 [ion binding]; metal-binding site 317655000903 dimer interface [polypeptide binding]; other site 317655000904 structural Zn2+ binding site [ion binding]; other site 317655000905 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 317655000906 active site 317655000907 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 317655000908 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 317655000909 Trp docking motif [polypeptide binding]; other site 317655000910 cytochrome domain interface [polypeptide binding]; other site 317655000911 active site 317655000912 Cytochrome c; Region: Cytochrom_C; cl11414 317655000913 LabA_like proteins; Region: LabA_like/DUF88; cl10034 317655000914 Integrase core domain; Region: rve; cl01316 317655000915 Integrase core domain; Region: rve_3; cl15866 317655000916 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 317655000917 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 317655000918 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 317655000919 protein binding site [polypeptide binding]; other site 317655000920 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 317655000921 putative dimer interface [polypeptide binding]; other site 317655000922 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 317655000923 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 317655000924 putative dimer interface [polypeptide binding]; other site 317655000925 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 317655000926 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 317655000927 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 317655000928 putative active site [active] 317655000929 catalytic site [active] 317655000930 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 317655000931 putative active site [active] 317655000932 catalytic site [active] 317655000933 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 317655000934 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 317655000935 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 317655000936 putative dimer interface [polypeptide binding]; other site 317655000937 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 317655000938 putative dimer interface [polypeptide binding]; other site 317655000939 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 317655000940 putative dimer interface [polypeptide binding]; other site 317655000941 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 317655000942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 317655000943 Helix-turn-helix domains; Region: HTH; cl00088 317655000944 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 317655000945 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 317655000946 dimerization interface [polypeptide binding]; other site 317655000947 DPS ferroxidase diiron center [ion binding]; other site 317655000948 ion pore; other site 317655000949 Transposase domain (DUF772); Region: DUF772; pfam05598 317655000950 Transposase; Region: DEDD_Tnp_IS110; pfam01548 317655000951 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 317655000952 Helix-turn-helix domains; Region: HTH; cl00088 317655000953 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 317655000954 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 317655000955 Integrase core domain; Region: rve; cl01316 317655000956 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 317655000957 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 317655000958 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 317655000959 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 317655000960 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 317655000961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655000962 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 317655000963 ATP binding site [chemical binding]; other site 317655000964 G-X-G motif; other site 317655000965 chaperone protein DnaJ; Provisional; Region: PRK14299 317655000966 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 317655000967 HSP70 interaction site [polypeptide binding]; other site 317655000968 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 317655000969 substrate binding site [polypeptide binding]; other site 317655000970 dimer interface [polypeptide binding]; other site 317655000971 thioredoxin 2; Provisional; Region: PRK10996 317655000972 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 317655000973 catalytic residues [active] 317655000974 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 317655000975 Clp amino terminal domain; Region: Clp_N; pfam02861 317655000976 Clp amino terminal domain; Region: Clp_N; pfam02861 317655000977 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 317655000978 Walker A motif; other site 317655000979 ATP binding site [chemical binding]; other site 317655000980 Walker B motif; other site 317655000981 arginine finger; other site 317655000982 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 317655000983 Walker A motif; other site 317655000984 ATP binding site [chemical binding]; other site 317655000985 Walker B motif; other site 317655000986 arginine finger; other site 317655000987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 317655000988 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655000989 YfdX protein; Region: YfdX; pfam10938 317655000990 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 317655000991 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 317655000992 Phosphate-starvation-inducible E; Region: PsiE; cl01264 317655000993 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 317655000994 Helix-turn-helix domains; Region: HTH; cl00088 317655000995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 317655000996 Integrase core domain; Region: rve; cl01316 317655000997 transposase/IS protein; Provisional; Region: PRK09183 317655000998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655000999 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 317655001000 dimer interface [polypeptide binding]; other site 317655001001 ssDNA binding site [nucleotide binding]; other site 317655001002 tetramer (dimer of dimers) interface [polypeptide binding]; other site 317655001003 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 317655001004 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 317655001005 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 317655001006 ParB-like nuclease domain; Region: ParBc; cl02129 317655001007 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 317655001008 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 317655001009 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 317655001010 Walker A motif; other site 317655001011 ATP binding site [chemical binding]; other site 317655001012 Walker B motif; other site 317655001013 arginine finger; other site 317655001014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 317655001015 Integrase core domain; Region: rve; cl01316 317655001016 RES domain; Region: RES; cl02411 317655001017 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 317655001018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001019 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 317655001020 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 317655001021 active site 317655001022 DNA binding site [nucleotide binding] 317655001023 Int/Topo IB signature motif; other site 317655001024 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 317655001025 active site 317655001026 DNA binding site [nucleotide binding] 317655001027 Int/Topo IB signature motif; other site 317655001028 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 317655001029 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 317655001030 Int/Topo IB signature motif; other site 317655001031 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; cl16911 317655001032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001033 DNA primase, catalytic core; Region: dnaG; TIGR01391 317655001034 CHC2 zinc finger; Region: zf-CHC2; cl15369 317655001035 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 317655001036 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 317655001037 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 catalyze...; Region: LT_GEWL; cd00254 317655001038 N-acetyl-D-glucosamine binding site [chemical binding]; other site 317655001039 catalytic residue [active] 317655001040 integrase; Provisional; Region: PRK09692 317655001041 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 317655001042 active site 317655001043 Int/Topo IB signature motif; other site 317655001044 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 317655001045 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001046 kelch-like protein; Provisional; Region: PHA03098 317655001047 Kelch motif; Region: Kelch_1; cl02701 317655001048 Kelch motif; Region: Kelch_1; cl02701 317655001049 YceG-like family; Region: YceG; pfam02618 317655001050 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 317655001051 dimerization interface [polypeptide binding]; other site 317655001052 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655001053 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 317655001054 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 317655001055 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 317655001056 ring oligomerisation interface [polypeptide binding]; other site 317655001057 ATP/Mg binding site [chemical binding]; other site 317655001058 stacking interactions; other site 317655001059 hinge regions; other site 317655001060 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 317655001061 oligomerisation interface [polypeptide binding]; other site 317655001062 mobile loop; other site 317655001063 roof hairpin; other site 317655001064 multidrug efflux protein; Reviewed; Region: PRK01766 317655001065 MatE; Region: MatE; cl10513 317655001066 MatE; Region: MatE; cl10513 317655001067 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; cl12031 317655001068 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001069 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 317655001070 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 317655001071 active site 317655001072 Zn binding site [ion binding]; other site 317655001073 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 317655001074 putative DNA binding site [nucleotide binding]; other site 317655001075 putative Zn2+ binding site [ion binding]; other site 317655001076 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 317655001077 putative hydrophobic ligand binding site [chemical binding]; other site 317655001078 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 317655001079 Domain of unknown function DUF87; Region: DUF87; pfam01935 317655001080 HerA helicase [Replication, recombination, and repair]; Region: COG0433 317655001081 PilZ domain; Region: PilZ; cl01260 317655001082 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 317655001083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655001084 active site 317655001085 nucleotide binding site [chemical binding]; other site 317655001086 HIGH motif; other site 317655001087 KMSKS motif; other site 317655001088 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 317655001089 active site 317655001090 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 317655001091 Fatty acid desaturase; Region: FA_desaturase; pfam00487 317655001092 putative di-iron ligands [ion binding]; other site 317655001093 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 317655001094 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 317655001095 PAS domain; Region: PAS_9; pfam13426 317655001096 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655001097 metal binding site [ion binding]; metal-binding site 317655001098 active site 317655001099 I-site; other site 317655001100 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 317655001101 Quinolinate synthetase A protein; Region: NadA; cl00420 317655001102 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 317655001103 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 317655001104 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 317655001105 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655001106 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655001107 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 317655001108 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 317655001109 Protein of unknown function (DUF445); Region: DUF445; pfam04286 317655001110 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655001111 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 317655001112 putative NAD(P) binding site [chemical binding]; other site 317655001113 aminopeptidase N; Provisional; Region: pepN; PRK14015 317655001114 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 317655001115 active site 317655001116 Zn binding site [ion binding]; other site 317655001117 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 317655001118 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001119 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; cl12031 317655001120 Protein of unknown function (DUF330); Region: DUF330; cl01135 317655001121 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 317655001122 mce related protein; Region: MCE; pfam02470 317655001123 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 317655001124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001125 Walker A/P-loop; other site 317655001126 ATP binding site [chemical binding]; other site 317655001127 Q-loop/lid; other site 317655001128 ABC transporter signature motif; other site 317655001129 Walker B; other site 317655001130 D-loop; other site 317655001131 H-loop/switch region; other site 317655001132 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 317655001133 Permease; Region: Permease; cl00510 317655001134 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655001135 methionine gamma-lyase; Validated; Region: PRK07049 317655001136 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 317655001137 homodimer interface [polypeptide binding]; other site 317655001138 substrate-cofactor binding pocket; other site 317655001139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655001140 catalytic residue [active] 317655001141 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 317655001142 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; cl15357 317655001143 transmembrane helices; other site 317655001144 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 317655001145 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 317655001146 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655001147 Uncharacterized conserved protein [Function unknown]; Region: COG1565 317655001148 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 317655001149 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 317655001150 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 317655001151 AMP-binding enzyme; Region: AMP-binding; cl15778 317655001152 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 317655001153 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 317655001154 Moco binding site; other site 317655001155 metal coordination site [ion binding]; other site 317655001156 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 317655001157 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 317655001158 S-adenosylmethionine binding site [chemical binding]; other site 317655001159 Protein of unknown function (DUF419); Region: DUF419; cl15265 317655001160 Peptidase S46; Region: Peptidase_S46; pfam10459 317655001161 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 317655001162 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 317655001163 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 317655001164 ANP binding site [chemical binding]; other site 317655001165 Substrate Binding Site II [chemical binding]; other site 317655001166 Substrate Binding Site I [chemical binding]; other site 317655001167 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 317655001168 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 317655001169 tetramer interface [polypeptide binding]; other site 317655001170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655001171 catalytic residue [active] 317655001172 EamA-like transporter family; Region: EamA; cl01037 317655001173 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; cl12031 317655001174 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 317655001175 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 317655001176 hinge; other site 317655001177 active site 317655001178 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 317655001179 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 317655001180 putative catalytic residue [active] 317655001181 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 317655001182 putative NAD(P) binding site [chemical binding]; other site 317655001183 active site 317655001184 Helix-turn-helix domains; Region: HTH; cl00088 317655001185 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 317655001186 Phasin protein; Region: Phasin_2; cl11491 317655001187 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 317655001188 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 317655001189 aminotransferase; Validated; Region: PRK09148 317655001190 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 317655001191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655001192 homodimer interface [polypeptide binding]; other site 317655001193 catalytic residue [active] 317655001194 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 317655001195 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 317655001196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 317655001197 putative substrate translocation pore; other site 317655001198 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655001199 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 317655001200 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 317655001201 GDP-binding site [chemical binding]; other site 317655001202 ACT binding site; other site 317655001203 IMP binding site; other site 317655001204 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; cl12031 317655001205 substrate binding pocket [chemical binding]; other site 317655001206 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 317655001207 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655001208 C-terminal domain interface [polypeptide binding]; other site 317655001209 GSH binding site (G-site) [chemical binding]; other site 317655001210 dimer interface [polypeptide binding]; other site 317655001211 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 317655001212 dimer interface [polypeptide binding]; other site 317655001213 N-terminal domain interface [polypeptide binding]; other site 317655001214 Chorismate mutase type II; Region: CM_2; cl00693 317655001215 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 317655001216 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 317655001217 substrate binding pocket [chemical binding]; other site 317655001218 chain length determination region; other site 317655001219 substrate-Mg2+ binding site; other site 317655001220 catalytic residues [active] 317655001221 aspartate-rich region 1; other site 317655001222 active site lid residues [active] 317655001223 aspartate-rich region 2; other site 317655001224 Protein of unknown function (DUF419); Region: DUF419; cl15265 317655001225 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 317655001226 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 317655001227 ATP binding site [chemical binding]; other site 317655001228 putative Mg++ binding site [ion binding]; other site 317655001229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001230 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 317655001231 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 317655001232 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 317655001233 enolase; Provisional; Region: eno; PRK00077 317655001234 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 317655001235 dimer interface [polypeptide binding]; other site 317655001236 metal binding site [ion binding]; metal-binding site 317655001237 substrate binding pocket [chemical binding]; other site 317655001238 Septum formation initiator; Region: DivIC; cl11433 317655001239 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 317655001240 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 317655001241 tetramer interface [polypeptide binding]; other site 317655001242 TPP-binding site [chemical binding]; other site 317655001243 heterodimer interface [polypeptide binding]; other site 317655001244 phosphorylation loop region [posttranslational modification] 317655001245 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 317655001246 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 317655001247 E3 interaction surface; other site 317655001248 lipoyl attachment site [posttranslational modification]; other site 317655001249 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 317655001250 alpha subunit interface [polypeptide binding]; other site 317655001251 TPP binding site [chemical binding]; other site 317655001252 heterodimer interface [polypeptide binding]; other site 317655001253 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 317655001254 serine O-acetyltransferase; Region: cysE; TIGR01172 317655001255 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 317655001256 trimer interface [polypeptide binding]; other site 317655001257 active site 317655001258 substrate binding site [chemical binding]; other site 317655001259 CoA binding site [chemical binding]; other site 317655001260 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 317655001261 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 317655001262 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 317655001263 NAD binding site [chemical binding]; other site 317655001264 homodimer interface [polypeptide binding]; other site 317655001265 active site 317655001266 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 317655001267 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 317655001268 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 317655001269 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 317655001270 heme-binding site [chemical binding]; other site 317655001271 Helix-turn-helix domains; Region: HTH; cl00088 317655001272 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 317655001273 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 317655001274 thymidine kinase; Provisional; Region: PRK04296 317655001275 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655001276 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 317655001277 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 317655001278 RNA binding site [nucleotide binding]; other site 317655001279 active site 317655001280 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 317655001281 16S/18S rRNA binding site [nucleotide binding]; other site 317655001282 S13e-L30e interaction site [polypeptide binding]; other site 317655001283 25S rRNA binding site [nucleotide binding]; other site 317655001284 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 317655001285 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 317655001286 RNase E interface [polypeptide binding]; other site 317655001287 trimer interface [polypeptide binding]; other site 317655001288 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 317655001289 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 317655001290 RNase E interface [polypeptide binding]; other site 317655001291 trimer interface [polypeptide binding]; other site 317655001292 active site 317655001293 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 317655001294 putative nucleic acid binding region [nucleotide binding]; other site 317655001295 G-X-X-G motif; other site 317655001296 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 317655001297 RNA binding site [nucleotide binding]; other site 317655001298 domain interface; other site 317655001299 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; cl00197 317655001300 active site 317655001301 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 317655001302 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 317655001303 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 317655001304 Walker A/P-loop; other site 317655001305 ATP binding site [chemical binding]; other site 317655001306 Q-loop/lid; other site 317655001307 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 317655001308 ABC transporter signature motif; other site 317655001309 Walker B; other site 317655001310 D-loop; other site 317655001311 H-loop/switch region; other site 317655001312 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655001313 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 317655001314 putative active site [active] 317655001315 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 317655001316 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 317655001317 nucleotide binding pocket [chemical binding]; other site 317655001318 K-X-D-G motif; other site 317655001319 catalytic site [active] 317655001320 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 317655001321 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 317655001322 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 317655001323 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 317655001324 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 317655001325 dimer interface [polypeptide binding]; other site 317655001326 conserved gate region; other site 317655001327 putative PBP binding loops; other site 317655001328 ABC-ATPase subunit interface; other site 317655001329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001330 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 317655001331 Walker A/P-loop; other site 317655001332 ATP binding site [chemical binding]; other site 317655001333 Q-loop/lid; other site 317655001334 ABC transporter signature motif; other site 317655001335 Walker B; other site 317655001336 D-loop; other site 317655001337 H-loop/switch region; other site 317655001338 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 317655001339 cofactor binding site; other site 317655001340 metal binding site [ion binding]; metal-binding site 317655001341 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 317655001342 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; cl16911 317655001343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 317655001344 classical (c) SDRs; Region: SDR_c; cd05233 317655001345 NAD(P) binding site [chemical binding]; other site 317655001346 active site 317655001347 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 317655001348 dimer interface [polypeptide binding]; other site 317655001349 putative CheW interface [polypeptide binding]; other site 317655001350 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 317655001351 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 317655001352 putative DNA binding site [nucleotide binding]; other site 317655001353 putative Zn2+ binding site [ion binding]; other site 317655001354 Helix-turn-helix domains; Region: HTH; cl00088 317655001355 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 317655001356 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 317655001357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001358 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655001359 Pirin-related protein [General function prediction only]; Region: COG1741 317655001360 Cupin domain; Region: Cupin_2; cl09118 317655001361 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 317655001362 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 317655001363 putative effector binding pocket; other site 317655001364 dimerization interface [polypeptide binding]; other site 317655001365 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 317655001366 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 317655001367 active site 317655001368 phosphorylation site [posttranslational modification] 317655001369 intermolecular recognition site; other site 317655001370 dimerization interface [polypeptide binding]; other site 317655001371 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 317655001372 DNA binding site [nucleotide binding] 317655001373 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 317655001374 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 317655001375 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 317655001376 alphaNTD - beta interaction site [polypeptide binding]; other site 317655001377 alphaNTD homodimer interface [polypeptide binding]; other site 317655001378 alphaNTD - beta' interaction site [polypeptide binding]; other site 317655001379 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 317655001380 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 317655001381 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 317655001382 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 317655001383 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 317655001384 active site 317655001385 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 317655001386 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 317655001387 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 317655001388 diiron binding motif [ion binding]; other site 317655001389 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 317655001390 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 317655001391 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 317655001392 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 317655001393 protein binding site [polypeptide binding]; other site 317655001394 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 317655001395 Catalytic dyad [active] 317655001396 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 317655001397 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 317655001398 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 317655001399 Oligomerisation domain; Region: Oligomerisation; cl00519 317655001400 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 317655001401 active site 317655001402 (T/H)XGH motif; other site 317655001403 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 317655001404 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 317655001405 putative catalytic cysteine [active] 317655001406 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 317655001407 enoyl-CoA hydratase; Provisional; Region: PRK08260 317655001408 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 317655001409 substrate binding site [chemical binding]; other site 317655001410 oxyanion hole (OAH) forming residues; other site 317655001411 trimer interface [polypeptide binding]; other site 317655001412 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 317655001413 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 317655001414 ATP binding site [chemical binding]; other site 317655001415 active site 317655001416 substrate binding site [chemical binding]; other site 317655001417 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 317655001418 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655001419 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 317655001420 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655001421 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 317655001422 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 317655001423 heme binding site [chemical binding]; other site 317655001424 ferroxidase pore; other site 317655001425 ferroxidase diiron center [ion binding]; other site 317655001426 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 317655001427 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 317655001428 putative active site [active] 317655001429 catalytic triad [active] 317655001430 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 317655001431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655001432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655001433 Helix-turn-helix domains; Region: HTH; cl00088 317655001434 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 317655001435 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; cl11420 317655001436 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655001437 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655001438 DNA binding site [nucleotide binding] 317655001439 domain linker motif; other site 317655001440 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 317655001441 putative dimerization interface [polypeptide binding]; other site 317655001442 putative ligand binding site [chemical binding]; other site 317655001443 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; cl16911 317655001444 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 317655001445 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 317655001446 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 317655001447 active site 317655001448 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 317655001449 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 317655001450 Domain of unknown function DUF87; Region: DUF87; pfam01935 317655001451 AAA-like domain; Region: AAA_10; pfam12846 317655001452 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655001453 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 317655001454 active site 317655001455 metal binding site [ion binding]; metal-binding site 317655001456 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 317655001457 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 317655001458 hypothetical protein; Provisional; Region: PRK14636 317655001459 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 317655001460 Sm1 motif; other site 317655001461 predicted subunit interaction site [polypeptide binding]; other site 317655001462 RNA binding pocket [nucleotide binding]; other site 317655001463 Sm2 motif; other site 317655001464 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 317655001465 NusA N-terminal domain; Region: NusA_N; pfam08529 317655001466 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 317655001467 RNA binding site [nucleotide binding]; other site 317655001468 homodimer interface [polypeptide binding]; other site 317655001469 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; cl00098 317655001470 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 317655001471 G-X-X-G motif; other site 317655001472 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 317655001473 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; cl00189 317655001474 putative RNA binding cleft [nucleotide binding]; other site 317655001475 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 317655001476 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 317655001477 translation initiation factor IF-2; Region: IF-2; TIGR00487 317655001478 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 317655001479 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 317655001480 G1 box; other site 317655001481 putative GEF interaction site [polypeptide binding]; other site 317655001482 GTP/Mg2+ binding site [chemical binding]; other site 317655001483 Switch I region; other site 317655001484 G2 box; other site 317655001485 G3 box; other site 317655001486 Switch II region; other site 317655001487 G4 box; other site 317655001488 G5 box; other site 317655001489 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 317655001490 Translation-initiation factor 2; Region: IF-2; pfam11987 317655001491 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 317655001492 Ribosome-binding factor A; Region: RBFA; cl00542 317655001493 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 317655001494 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 317655001495 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 attaches...; Region: class_II_aaRS-like_core; cl00268 317655001496 motif 1; other site 317655001497 dimer interface [polypeptide binding]; other site 317655001498 active site 317655001499 motif 2; other site 317655001500 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 317655001501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001502 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 317655001503 putative L-serine binding site [chemical binding]; other site 317655001504 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 317655001505 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 317655001506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655001507 catalytic residue [active] 317655001508 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 317655001509 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 317655001510 Cytochrome c; Region: Cytochrom_C; cl11414 317655001511 Cytochrome c; Region: Cytochrom_C; cl11414 317655001512 prephenate dehydratase; Provisional; Region: PRK11899 317655001513 Prephenate dehydratase; Region: PDT; pfam00800 317655001514 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 317655001515 putative L-Phe binding site [chemical binding]; other site 317655001516 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 317655001517 DNA polymerase I; Provisional; Region: PRK05755 317655001518 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 317655001519 active site 317655001520 metal binding site 1 [ion binding]; metal-binding site 317655001521 putative 5' ssDNA interaction site; other site 317655001522 metal binding site 3; metal-binding site 317655001523 metal binding site 2 [ion binding]; metal-binding site 317655001524 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 317655001525 putative DNA binding site [nucleotide binding]; other site 317655001526 putative metal binding site [ion binding]; other site 317655001527 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 317655001528 active site 317655001529 substrate binding site [chemical binding]; other site 317655001530 catalytic site [active] 317655001531 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 317655001532 active site 317655001533 DNA binding site [nucleotide binding] 317655001534 catalytic site [active] 317655001535 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 317655001536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655001537 Coenzyme A binding pocket [chemical binding]; other site 317655001538 peroxiredoxin; Region: AhpC; TIGR03137 317655001539 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 317655001540 dimer interface [polypeptide binding]; other site 317655001541 decamer (pentamer of dimers) interface [polypeptide binding]; other site 317655001542 catalytic triad [active] 317655001543 peroxidatic and resolving cysteines [active] 317655001544 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 317655001545 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 317655001546 catalytic residue [active] 317655001547 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 317655001548 catalytic residues [active] 317655001549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655001550 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 317655001551 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655001552 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 317655001553 C-terminal domain interface [polypeptide binding]; other site 317655001554 GSH binding site (G-site) [chemical binding]; other site 317655001555 dimer interface [polypeptide binding]; other site 317655001556 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 317655001557 dimer interface [polypeptide binding]; other site 317655001558 N-terminal domain interface [polypeptide binding]; other site 317655001559 substrate binding pocket (H-site) [chemical binding]; other site 317655001560 Helix-turn-helix domains; Region: HTH; cl00088 317655001561 GMP synthase; Reviewed; Region: guaA; PRK00074 317655001562 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 317655001563 AMP/PPi binding site [chemical binding]; other site 317655001564 candidate oxyanion hole; other site 317655001565 catalytic triad [active] 317655001566 potential glutamine specificity residues [chemical binding]; other site 317655001567 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 317655001568 ATP Binding subdomain [chemical binding]; other site 317655001569 Ligand Binding sites [chemical binding]; other site 317655001570 Dimerization subdomain; other site 317655001571 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655001572 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 317655001573 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 317655001574 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 317655001575 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 317655001576 putative active site [active] 317655001577 putative metal binding site [ion binding]; other site 317655001578 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 317655001579 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655001580 NAD(P) binding site [chemical binding]; other site 317655001581 catalytic residues [active] 317655001582 acetolactate synthase; Reviewed; Region: PRK08322 317655001583 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 317655001584 PYR/PP interface [polypeptide binding]; other site 317655001585 dimer interface [polypeptide binding]; other site 317655001586 TPP binding site [chemical binding]; other site 317655001587 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 317655001588 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 317655001589 TPP-binding site [chemical binding]; other site 317655001590 dimer interface [polypeptide binding]; other site 317655001591 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 317655001592 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 317655001593 metal ion-dependent adhesion site (MIDAS); other site 317655001594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 317655001595 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 317655001596 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 317655001597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655001598 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655001599 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 317655001600 BolA-like protein; Region: BolA; cl00386 317655001601 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 317655001602 Pirin-related protein [General function prediction only]; Region: COG1741 317655001603 Cupin domain; Region: Cupin_2; cl09118 317655001604 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 317655001605 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655001607 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 317655001608 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 317655001609 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 317655001610 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 317655001611 chaperone protein DnaJ; Provisional; Region: PRK14299 317655001612 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 317655001613 HSP70 interaction site [polypeptide binding]; other site 317655001614 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 317655001615 substrate binding site [polypeptide binding]; other site 317655001616 dimer interface [polypeptide binding]; other site 317655001617 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 317655001618 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 317655001619 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 317655001620 NAD binding site [chemical binding]; other site 317655001621 homotetramer interface [polypeptide binding]; other site 317655001622 homodimer interface [polypeptide binding]; other site 317655001623 substrate binding site [chemical binding]; other site 317655001624 active site 317655001625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655001626 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 317655001627 dimer interface [polypeptide binding]; other site 317655001628 putative metal binding site [ion binding]; other site 317655001629 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 317655001630 Tetramer interface [polypeptide binding]; other site 317655001631 active site 317655001632 FMN-binding site [chemical binding]; other site 317655001633 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; cl15357 317655001634 transmembrane helices; other site 317655001635 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; cl15357 317655001636 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; cl15357 317655001637 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; cl15357 317655001638 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 317655001639 Cytochrome P450; Region: p450; pfam00067 317655001640 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655001641 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 317655001642 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655001643 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 317655001644 Domain of unknown function DUF59; Region: DUF59; cl00941 317655001645 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 317655001646 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 317655001647 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655001648 catalytic residue [active] 317655001649 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 317655001650 FeS assembly ATPase SufC; Region: sufC; TIGR01978 317655001651 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 317655001652 Walker A/P-loop; other site 317655001653 ATP binding site [chemical binding]; other site 317655001654 Q-loop/lid; other site 317655001655 ABC transporter signature motif; other site 317655001656 Walker B; other site 317655001657 D-loop; other site 317655001658 H-loop/switch region; other site 317655001659 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 317655001660 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655001661 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 317655001662 putative active site [active] 317655001663 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 317655001664 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 317655001665 putative ABC transporter; Region: ycf24; CHL00085 317655001666 Helix-turn-helix domains; Region: HTH; cl00088 317655001667 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 317655001668 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655001669 Helix-turn-helix domain; Region: HTH_18; pfam12833 317655001670 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 317655001671 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 317655001672 quinone interaction residues [chemical binding]; other site 317655001673 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 317655001674 active site 317655001675 catalytic residues [active] 317655001676 FMN binding site [chemical binding]; other site 317655001677 substrate binding site [chemical binding]; other site 317655001678 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 317655001679 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 317655001680 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 317655001681 AMP-binding enzyme; Region: AMP-binding; cl15778 317655001682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655001683 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655001684 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 317655001685 dimer interface [polypeptide binding]; other site 317655001686 active site 317655001687 metal binding site [ion binding]; metal-binding site 317655001688 glutathione binding site [chemical binding]; other site 317655001689 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 317655001690 active site 317655001691 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001692 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 317655001693 non-specific DNA binding site [nucleotide binding]; other site 317655001694 salt bridge; other site 317655001695 sequence-specific DNA binding site [nucleotide binding]; other site 317655001696 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 317655001697 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 317655001698 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 317655001699 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 317655001700 active site 317655001701 dimer interface [polypeptide binding]; other site 317655001702 motif 1; other site 317655001703 motif 2; other site 317655001704 motif 3; other site 317655001705 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 317655001706 anticodon binding site; other site 317655001707 Helix-turn-helix domain; Region: HTH_18; pfam12833 317655001708 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 317655001709 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 317655001710 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 317655001711 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 317655001712 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 317655001713 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 317655001714 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 317655001715 Walker A/P-loop; other site 317655001716 ATP binding site [chemical binding]; other site 317655001717 Q-loop/lid; other site 317655001718 ABC transporter signature motif; other site 317655001719 Walker B; other site 317655001720 D-loop; other site 317655001721 H-loop/switch region; other site 317655001722 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 317655001723 active site 317655001724 catalytic triad [active] 317655001725 oxyanion hole [active] 317655001726 switch loop; other site 317655001727 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 317655001728 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 317655001729 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 317655001730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655001731 Helix-turn-helix domains; Region: HTH; cl00088 317655001732 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 317655001733 dimerization interface [polypeptide binding]; other site 317655001734 DNA polymerase III subunit beta; Validated; Region: PRK05643 317655001735 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 317655001736 putative DNA binding surface [nucleotide binding]; other site 317655001737 dimer interface [polypeptide binding]; other site 317655001738 beta-clamp/clamp loader binding surface; other site 317655001739 beta-clamp/translesion DNA polymerase binding surface; other site 317655001740 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 317655001741 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 317655001742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001743 NlpC/P60 family; Region: NLPC_P60; cl11438 317655001744 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 317655001745 interface (dimer of trimers) [polypeptide binding]; other site 317655001746 Substrate-binding/catalytic site; other site 317655001747 Zn-binding sites [ion binding]; other site 317655001748 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 317655001749 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 317655001750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001751 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 317655001752 Phosphate transporter family; Region: PHO4; cl00396 317655001753 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 317655001754 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 317655001755 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 317655001756 FeS/SAM binding site; other site 317655001757 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 317655001758 Ion channel; Region: Ion_trans_2; cl11596 317655001759 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 317655001760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001761 Survival protein SurE; Region: SurE; cl00448 317655001762 seryl-tRNA synthetase; Provisional; Region: PRK05431 317655001763 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 317655001764 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 bound...; Region: SerRS_core; cd00770 317655001765 dimer interface [polypeptide binding]; other site 317655001766 active site 317655001767 motif 1; other site 317655001768 motif 2; other site 317655001769 motif 3; other site 317655001770 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 317655001771 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 317655001772 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 317655001773 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 317655001774 catalytic residues [active] 317655001775 Sulfatase; Region: Sulfatase; cl10460 317655001776 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 317655001777 GIY-YIG motif/motif A; other site 317655001778 putative active site [active] 317655001779 putative metal binding site [ion binding]; other site 317655001780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655001781 Helix-turn-helix domains; Region: HTH; cl00088 317655001782 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 317655001783 substrate binding site [chemical binding]; other site 317655001784 oxyanion hole (OAH) forming residues; other site 317655001785 trimer interface [polypeptide binding]; other site 317655001786 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 317655001787 putative substrate binding site [chemical binding]; other site 317655001788 active site 317655001789 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 317655001790 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 317655001791 active site 317655001792 catalytic residues [active] 317655001793 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 317655001794 putative substrate binding site [chemical binding]; other site 317655001795 active site 317655001796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001797 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655001798 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655001799 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655001800 ligand-binding site [chemical binding]; other site 317655001801 galactonate dehydratase; Provisional; Region: PRK14017 317655001802 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 317655001803 putative active site pocket [active] 317655001804 putative metal binding site [ion binding]; other site 317655001805 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 317655001806 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 317655001807 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 317655001808 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 317655001809 active site 317655001810 intersubunit interface [polypeptide binding]; other site 317655001811 catalytic residue [active] 317655001812 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 317655001813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001814 Transcriptional regulators [Transcription]; Region: FadR; COG2186 317655001815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655001816 DNA-binding site [nucleotide binding]; DNA binding site 317655001817 FCD domain; Region: FCD; cl11656 317655001818 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 317655001819 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 317655001820 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 317655001821 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 317655001822 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 317655001823 dimer interface [polypeptide binding]; other site 317655001824 conserved gate region; other site 317655001825 putative PBP binding loops; other site 317655001826 ABC-ATPase subunit interface; other site 317655001827 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 317655001828 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 317655001829 conserved gate region; other site 317655001830 putative PBP binding loops; other site 317655001831 ABC-ATPase subunit interface; other site 317655001832 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 317655001833 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 317655001834 Walker A/P-loop; other site 317655001835 ATP binding site [chemical binding]; other site 317655001836 Q-loop/lid; other site 317655001837 ABC transporter signature motif; other site 317655001838 Walker B; other site 317655001839 D-loop; other site 317655001840 H-loop/switch region; other site 317655001841 TOBE domain; Region: TOBE_2; cl01440 317655001842 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655001843 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 317655001844 active site 317655001845 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 317655001846 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 317655001847 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 317655001848 G1 box; other site 317655001849 putative GEF interaction site [polypeptide binding]; other site 317655001850 GTP/Mg2+ binding site [chemical binding]; other site 317655001851 Switch I region; other site 317655001852 G2 box; other site 317655001853 G3 box; other site 317655001854 Switch II region; other site 317655001855 G4 box; other site 317655001856 G5 box; other site 317655001857 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 317655001858 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 317655001859 active site 317655001860 DNA polymerase IV; Validated; Region: PRK02406 317655001861 DNA binding site [nucleotide binding] 317655001862 Secreted protein acidic and rich in cysteine Ca binding region; Region: SPARC_Ca_bdg; pfam10591 317655001863 osmolarity response regulator; Provisional; Region: ompR; PRK09468 317655001864 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 317655001865 active site 317655001866 phosphorylation site [posttranslational modification] 317655001867 intermolecular recognition site; other site 317655001868 dimerization interface [polypeptide binding]; other site 317655001869 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 317655001870 DNA binding site [nucleotide binding] 317655001871 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 317655001872 dimer interface [polypeptide binding]; other site 317655001873 phosphorylation site [posttranslational modification] 317655001874 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 317655001875 ATP binding site [chemical binding]; other site 317655001876 Mg2+ binding site [ion binding]; other site 317655001877 G-X-G motif; other site 317655001878 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 317655001879 Uncharacterized conserved protein [Function unknown]; Region: COG3268 317655001880 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 317655001881 trimer interface [polypeptide binding]; other site 317655001882 active site 317655001883 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 317655001884 active site 317655001885 catalytic motif [active] 317655001886 Zn binding site [ion binding]; other site 317655001887 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; cd00599 317655001888 active site 317655001889 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 317655001890 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 317655001891 replicative DNA helicase; Provisional; Region: PRK09165 317655001892 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 317655001893 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 317655001894 Walker A motif; other site 317655001895 ATP binding site [chemical binding]; other site 317655001896 Walker B motif; other site 317655001897 DNA binding loops [nucleotide binding] 317655001898 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 317655001899 GIY-YIG motif/motif A; other site 317655001900 putative active site [active] 317655001901 putative metal binding site [ion binding]; other site 317655001902 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 317655001903 Active Sites [active] 317655001904 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 317655001905 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 317655001906 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 317655001907 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 317655001908 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 317655001909 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 317655001910 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 317655001911 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655001912 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 317655001913 NAD(P) binding site [chemical binding]; other site 317655001914 catalytic residues [active] 317655001915 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655001916 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 317655001917 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 317655001918 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 317655001919 FMN binding site [chemical binding]; other site 317655001920 substrate binding site [chemical binding]; other site 317655001921 putative catalytic residue [active] 317655001922 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 317655001923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655001924 Bacterial SH3 domain; Region: SH3_3; cl02551 317655001925 Bacterial SH3 domain; Region: SH3_3; cl02551 317655001926 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 317655001927 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 317655001928 dimer interface [polypeptide binding]; other site 317655001929 active site 317655001930 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 317655001931 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 317655001932 NAD(P) binding site [chemical binding]; other site 317655001933 catalytic residues [active] 317655001934 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 317655001935 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 317655001936 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655001937 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655001938 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655001939 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 317655001940 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 317655001941 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 317655001942 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 317655001943 RNA binding surface [nucleotide binding]; other site 317655001944 Chorismate mutase type II; Region: CM_2; cl00693 317655001945 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 317655001946 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 317655001947 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 317655001948 ATP cone domain; Region: ATP-cone; pfam03477 317655001949 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 317655001950 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 317655001951 dimer interface [polypeptide binding]; other site 317655001952 active site 317655001953 glycine-pyridoxal phosphate binding site [chemical binding]; other site 317655001954 folate binding site [chemical binding]; other site 317655001955 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 317655001956 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 317655001957 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 317655001958 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 317655001959 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655001960 catalytic residue [active] 317655001961 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 317655001962 catalytic loop [active] 317655001963 iron binding site [ion binding]; other site 317655001964 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 317655001965 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 317655001966 Walker A motif; other site 317655001967 ATP binding site [chemical binding]; other site 317655001968 Walker B motif; other site 317655001969 arginine finger; other site 317655001970 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 317655001971 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 317655001972 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 317655001973 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 317655001974 Found in ATP-dependent protease La (LON); Region: LON; smart00464 317655001975 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 317655001976 Walker A motif; other site 317655001977 ATP binding site [chemical binding]; other site 317655001978 Walker B motif; other site 317655001979 arginine finger; other site 317655001980 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 317655001981 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 317655001982 IHF dimer interface [polypeptide binding]; other site 317655001983 IHF - DNA interface [nucleotide binding]; other site 317655001984 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 317655001985 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 317655001986 active site 317655001987 phosphorylation site [posttranslational modification] 317655001988 intermolecular recognition site; other site 317655001989 dimerization interface [polypeptide binding]; other site 317655001990 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 317655001991 DNA binding site [nucleotide binding] 317655001992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655001993 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 317655001994 ATP binding site [chemical binding]; other site 317655001995 Mg2+ binding site [ion binding]; other site 317655001996 G-X-G motif; other site 317655001997 Integrase core domain; Region: rve; cl01316 317655001998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 317655001999 Transposase; Region: DEDD_Tnp_IS110; pfam01548 317655002000 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 317655002001 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 317655002002 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 317655002003 Gram-negative bacterial tonB protein; Region: TonB; cl10048 317655002004 homoserine dehydrogenase; Provisional; Region: PRK06349 317655002005 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 317655002006 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 317655002007 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 317655002008 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 317655002009 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 317655002010 Low molecular weight phosphatase family; Region: LMWPc; cd00115 317655002011 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 317655002012 active site 317655002013 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 317655002014 putative substrate translocation pore; other site 317655002015 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 317655002016 E-class dimer interface [polypeptide binding]; other site 317655002017 P-class dimer interface [polypeptide binding]; other site 317655002018 active site 317655002019 Cu2+ binding site [ion binding]; other site 317655002020 Zn2+ binding site [ion binding]; other site 317655002021 Transposase domain (DUF772); Region: DUF772; pfam05598 317655002022 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 317655002023 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 317655002024 active site 317655002025 phosphorylation site [posttranslational modification] 317655002026 intermolecular recognition site; other site 317655002027 dimerization interface [polypeptide binding]; other site 317655002028 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 317655002029 DNA binding site [nucleotide binding] 317655002030 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 317655002031 PhoU domain; Region: PhoU; pfam01895 317655002032 PhoU domain; Region: PhoU; pfam01895 317655002033 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 317655002034 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 317655002035 Walker A/P-loop; other site 317655002036 ATP binding site [chemical binding]; other site 317655002037 Q-loop/lid; other site 317655002038 ABC transporter signature motif; other site 317655002039 Walker B; other site 317655002040 D-loop; other site 317655002041 H-loop/switch region; other site 317655002042 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 317655002043 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 317655002044 dimer interface [polypeptide binding]; other site 317655002045 conserved gate region; other site 317655002046 putative PBP binding loops; other site 317655002047 ABC-ATPase subunit interface; other site 317655002048 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 317655002049 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 317655002050 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 317655002051 dimer interface [polypeptide binding]; other site 317655002052 conserved gate region; other site 317655002053 putative PBP binding loops; other site 317655002054 ABC-ATPase subunit interface; other site 317655002055 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 317655002056 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 317655002057 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 317655002058 dimer interface [polypeptide binding]; other site 317655002059 Citrate synthase; Region: Citrate_synt; pfam00285 317655002060 active site 317655002061 citrylCoA binding site [chemical binding]; other site 317655002062 NADH binding [chemical binding]; other site 317655002063 cationic pore residues; other site 317655002064 oxalacetate/citrate binding site [chemical binding]; other site 317655002065 coenzyme A binding site [chemical binding]; other site 317655002066 catalytic triad [active] 317655002067 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 317655002068 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 317655002069 HIGH motif; other site 317655002070 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 317655002071 active site 317655002072 KMSKS motif; other site 317655002073 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 317655002074 Competence protein; Region: Competence; cl00471 317655002075 LexA repressor; Validated; Region: PRK00215 317655002076 Helix-turn-helix domains; Region: HTH; cl00088 317655002077 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 317655002078 Catalytic site [active] 317655002079 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 317655002080 dimer interface [polypeptide binding]; other site 317655002081 putative functional site; other site 317655002082 putative MPT binding site; other site 317655002083 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 317655002084 trimer interface [polypeptide binding]; other site 317655002085 dimer interface [polypeptide binding]; other site 317655002086 putative active site [active] 317655002087 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 317655002088 active site 317655002089 ribulose/triose binding site [chemical binding]; other site 317655002090 phosphate binding site [ion binding]; other site 317655002091 substrate (anthranilate) binding pocket [chemical binding]; other site 317655002092 product (indole) binding pocket [chemical binding]; other site 317655002093 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 317655002094 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 317655002095 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 317655002096 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 317655002097 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 317655002098 glutamine binding [chemical binding]; other site 317655002099 catalytic triad [active] 317655002100 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 317655002101 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 317655002102 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 317655002103 indole acetimide hydrolase; Validated; Region: PRK07488 317655002104 Amidase; Region: Amidase; cl11426 317655002105 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 317655002106 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 317655002107 GatB domain; Region: GatB_Yqey; cl11497 317655002108 trigger factor; Provisional; Region: tig; PRK01490 317655002109 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 317655002110 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 317655002111 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 317655002112 minor groove reading motif; other site 317655002113 helix-hairpin-helix signature motif; other site 317655002114 substrate binding pocket [chemical binding]; other site 317655002115 active site 317655002116 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 317655002117 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 317655002118 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 317655002119 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 317655002120 integrase; Provisional; Region: PRK09692 317655002121 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 317655002122 active site 317655002123 Int/Topo IB signature motif; other site 317655002124 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 317655002125 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 317655002126 Walker A motif; other site 317655002127 ATP binding site [chemical binding]; other site 317655002128 Walker B motif; other site 317655002129 arginine finger; other site 317655002130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 317655002131 Integrase core domain; Region: rve; cl01316 317655002132 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 317655002133 active site 2 [active] 317655002134 active site 1 [active] 317655002135 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 317655002136 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 317655002137 substrate binding site [chemical binding]; other site 317655002138 oxyanion hole (OAH) forming residues; other site 317655002139 trimer interface [polypeptide binding]; other site 317655002140 enoyl-CoA hydratase; Provisional; Region: PRK06688 317655002141 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 317655002142 substrate binding site [chemical binding]; other site 317655002143 oxyanion hole (OAH) forming residues; other site 317655002144 trimer interface [polypeptide binding]; other site 317655002145 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655002146 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655002147 active site 317655002148 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655002149 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 317655002150 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 317655002151 FMN binding site [chemical binding]; other site 317655002152 substrate binding site [chemical binding]; other site 317655002153 putative catalytic residue [active] 317655002154 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 317655002155 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 317655002156 NAD(P) binding site [chemical binding]; other site 317655002157 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 317655002158 classical (c) SDRs; Region: SDR_c; cd05233 317655002159 NAD(P) binding site [chemical binding]; other site 317655002160 active site 317655002161 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655002162 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655002163 active site 317655002164 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 317655002165 putative active site [active] 317655002166 putative substrate binding site [chemical binding]; other site 317655002167 ATP binding site [chemical binding]; other site 317655002168 Helix-turn-helix domains; Region: HTH; cl00088 317655002169 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655002170 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 317655002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002172 short chain dehydrogenase; Provisional; Region: PRK07677 317655002173 NAD(P) binding site [chemical binding]; other site 317655002174 active site 317655002175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002176 active site 317655002177 classical (c) SDRs; Region: SDR_c; cd05233 317655002178 NAD(P) binding site [chemical binding]; other site 317655002179 active site 317655002180 Transcriptional regulators [Transcription]; Region: FadR; COG2186 317655002181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655002182 DNA-binding site [nucleotide binding]; DNA binding site 317655002183 FCD domain; Region: FCD; cl11656 317655002184 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 317655002185 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002186 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655002187 short chain dehydrogenase; Provisional; Region: PRK07774 317655002188 classical (c) SDRs; Region: SDR_c; cd05233 317655002189 NAD(P) binding site [chemical binding]; other site 317655002190 active site 317655002191 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655002192 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 317655002193 NAD(P) binding site [chemical binding]; other site 317655002194 catalytic residues [active] 317655002195 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655002196 Helix-turn-helix domains; Region: HTH; cl00088 317655002197 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 317655002198 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655002199 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 317655002200 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 317655002201 FAD binding site [chemical binding]; other site 317655002202 substrate binding site [chemical binding]; other site 317655002203 catalytic base [active] 317655002204 enoyl-CoA hydratase; Provisional; Region: PRK06190 317655002205 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 317655002206 substrate binding site [chemical binding]; other site 317655002207 oxyanion hole (OAH) forming residues; other site 317655002208 trimer interface [polypeptide binding]; other site 317655002209 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 317655002210 short chain dehydrogenase; Provisional; Region: PRK07677 317655002211 NAD(P) binding site [chemical binding]; other site 317655002212 substrate binding site [chemical binding]; other site 317655002213 homotetramer interface [polypeptide binding]; other site 317655002214 active site 317655002215 homodimer interface [polypeptide binding]; other site 317655002216 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 317655002217 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 317655002218 substrate binding site [chemical binding]; other site 317655002219 oxyanion hole (OAH) forming residues; other site 317655002220 trimer interface [polypeptide binding]; other site 317655002221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002223 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 317655002224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002225 NAD(P) binding site [chemical binding]; other site 317655002226 active site 317655002227 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 317655002228 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002229 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002230 classical (c) SDRs; Region: SDR_c; cd05233 317655002231 NAD(P) binding site [chemical binding]; other site 317655002232 active site 317655002233 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 317655002234 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 317655002235 putative NAD(P) binding site [chemical binding]; other site 317655002236 putative active site [active] 317655002237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002238 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655002239 NAD(P) binding site [chemical binding]; other site 317655002240 active site 317655002241 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 317655002242 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655002243 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655002244 N-terminal plug; other site 317655002245 ligand-binding site [chemical binding]; other site 317655002246 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 317655002247 putative substrate translocation pore; other site 317655002248 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 317655002249 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; cl12031 317655002250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655002251 Flavin Reductases; Region: FlaRed; cl00801 317655002252 lipid-transfer protein; Provisional; Region: PRK07855 317655002253 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 317655002254 active site 317655002255 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 317655002256 DUF35 OB-fold domain; Region: DUF35; pfam01796 317655002257 putative CoA-transferase; Provisional; Region: PRK11430 317655002258 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655002259 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655002260 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655002261 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 317655002262 putative active site [active] 317655002263 ATP binding site [chemical binding]; other site 317655002264 putative substrate binding site [chemical binding]; other site 317655002265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002266 NAD(P) binding site [chemical binding]; other site 317655002267 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 317655002268 active site 317655002269 Helix-turn-helix domains; Region: HTH; cl00088 317655002270 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 317655002271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002272 NAD(P) binding site [chemical binding]; other site 317655002273 active site 317655002274 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 317655002275 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 317655002276 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 317655002277 DUF35 OB-fold domain; Region: DUF35; pfam01796 317655002278 lipid-transfer protein; Provisional; Region: PRK07855 317655002279 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 317655002280 active site 317655002281 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655002282 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655002283 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655002284 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 317655002285 NAD binding site [chemical binding]; other site 317655002286 catalytic residues [active] 317655002287 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655002288 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 317655002289 DUF35 OB-fold domain; Region: DUF35; pfam01796 317655002290 lipid-transfer protein; Provisional; Region: PRK07855 317655002291 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 317655002292 active site 317655002293 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 317655002294 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 317655002295 active site 317655002296 formyl-coenzyme A transferase; Provisional; Region: PRK05398 317655002297 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655002298 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 317655002299 substrate binding site [chemical binding]; other site 317655002300 oxyanion hole (OAH) forming residues; other site 317655002301 trimer interface [polypeptide binding]; other site 317655002302 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 317655002303 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002304 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002305 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 317655002306 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002307 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002308 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655002309 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655002310 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655002311 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655002312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002313 SapC; Region: SapC; pfam07277 317655002314 JmjC domain, hydroxylase; Region: JmjC; cl15814 317655002315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002316 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 317655002317 active site 317655002318 catalytic residues [active] 317655002319 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655002320 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655002321 DNA binding site [nucleotide binding] 317655002322 domain linker motif; other site 317655002323 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 317655002324 putative dimerization interface [polypeptide binding]; other site 317655002325 putative ligand binding site [chemical binding]; other site 317655002326 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 317655002327 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 317655002328 FMN binding site [chemical binding]; other site 317655002329 substrate binding site [chemical binding]; other site 317655002330 putative catalytic residue [active] 317655002331 dihydroorotase; Validated; Region: pyrC; PRK09357 317655002332 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 317655002333 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 317655002334 active site 317655002335 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 317655002336 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 317655002337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002338 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 317655002339 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 317655002340 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 317655002341 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 317655002342 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 317655002343 BCCT family transporter; Region: BCCT; cl00569 317655002344 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 317655002345 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 317655002346 active site 317655002347 phosphorylation site [posttranslational modification] 317655002348 intermolecular recognition site; other site 317655002349 dimerization interface [polypeptide binding]; other site 317655002350 LytTr DNA-binding domain; Region: LytTR; cl04498 317655002351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 317655002352 Histidine kinase; Region: His_kinase; pfam06580 317655002353 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 317655002354 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 317655002355 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655002356 active site 317655002357 HIGH motif; other site 317655002358 nucleotide binding site [chemical binding]; other site 317655002359 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 317655002360 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 317655002361 active site 317655002362 KMSKS motif; other site 317655002363 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 317655002364 tRNA binding surface [nucleotide binding]; other site 317655002365 anticodon binding site; other site 317655002366 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 317655002367 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 317655002368 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; cl12031 317655002369 PilZ domain; Region: PilZ; cl01260 317655002370 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 317655002371 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 317655002372 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 317655002373 active site 317655002374 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 317655002375 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 317655002376 Patatin phospholipase; Region: DUF3734; pfam12536 317655002377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002378 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 317655002379 NAD(P) binding site [chemical binding]; other site 317655002380 active site 317655002381 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 317655002382 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 317655002383 metal binding site [ion binding]; metal-binding site 317655002384 putative dimer interface [polypeptide binding]; other site 317655002385 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 317655002386 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 317655002387 substrate binding site [chemical binding]; other site 317655002388 oxyanion hole (OAH) forming residues; other site 317655002389 trimer interface [polypeptide binding]; other site 317655002390 Integral membrane protein TerC family; Region: TerC; cl10468 317655002391 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 317655002392 tetramer interface [polypeptide binding]; other site 317655002393 active site 317655002394 Mg2+/Mn2+ binding site [ion binding]; other site 317655002395 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 317655002396 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655002397 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 317655002398 Domain of unknown function (DUF955); Region: DUF955; cl01076 317655002399 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 317655002400 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 317655002401 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 317655002402 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 317655002403 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655002404 N-terminal plug; other site 317655002405 ligand-binding site [chemical binding]; other site 317655002406 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 317655002407 Bacterial sugar transferase; Region: Bac_transf; cl00939 317655002408 GAF domain; Region: GAF; cl15785 317655002409 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 317655002410 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 317655002411 ATP binding site [chemical binding]; other site 317655002412 Mg2+ binding site [ion binding]; other site 317655002413 G-X-G motif; other site 317655002414 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 317655002415 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 317655002416 active site 317655002417 phosphorylation site [posttranslational modification] 317655002418 intermolecular recognition site; other site 317655002419 dimerization interface [polypeptide binding]; other site 317655002420 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 317655002421 Walker A motif; other site 317655002422 ATP binding site [chemical binding]; other site 317655002423 Walker B motif; other site 317655002424 arginine finger; other site 317655002425 Helix-turn-helix domains; Region: HTH; cl00088 317655002426 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 317655002427 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 317655002428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655002429 DNA-binding site [nucleotide binding]; DNA binding site 317655002430 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 317655002431 putative FMN binding site [chemical binding]; other site 317655002432 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 317655002433 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 317655002434 putative substrate translocation pore; other site 317655002435 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; cl11420 317655002436 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 317655002437 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 317655002438 active site 317655002439 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 317655002440 active site 317655002441 Phospholipid methyltransferase; Region: PEMT; cl00763 317655002442 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 317655002443 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 317655002444 active site 317655002445 catalytic tetrad [active] 317655002446 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 317655002447 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 317655002448 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 317655002449 active site 317655002450 substrate binding site [chemical binding]; other site 317655002451 metal binding site [ion binding]; metal-binding site 317655002452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 317655002453 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 317655002454 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 317655002455 dimer interface [polypeptide binding]; other site 317655002456 substrate binding site [chemical binding]; other site 317655002457 ATP binding site [chemical binding]; other site 317655002458 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655002459 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 317655002460 active site 317655002461 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 317655002462 RNA/DNA hybrid binding site [nucleotide binding]; other site 317655002463 active site 317655002464 short chain dehydrogenase; Provisional; Region: PRK06197 317655002465 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 317655002466 putative NAD(P) binding site [chemical binding]; other site 317655002467 active site 317655002468 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 317655002469 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; cl16911 317655002470 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 317655002471 dihydropteroate synthase; Region: DHPS; TIGR01496 317655002472 substrate binding pocket [chemical binding]; other site 317655002473 dimer interface [polypeptide binding]; other site 317655002474 inhibitor binding site; inhibition site 317655002475 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 317655002476 dimerization interface [polypeptide binding]; other site 317655002477 putative DNA binding site [nucleotide binding]; other site 317655002478 putative Zn2+ binding site [ion binding]; other site 317655002479 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 317655002480 putative hydrophobic ligand binding site [chemical binding]; other site 317655002481 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655002482 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 317655002483 active site 317655002484 phosphorylation site [posttranslational modification] 317655002485 intermolecular recognition site; other site 317655002486 dimerization interface [polypeptide binding]; other site 317655002487 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 317655002488 Walker A motif; other site 317655002489 ATP binding site [chemical binding]; other site 317655002490 Walker B motif; other site 317655002491 arginine finger; other site 317655002492 Helix-turn-helix domains; Region: HTH; cl00088 317655002493 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 317655002494 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 317655002495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002496 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 317655002497 Fasciclin domain; Region: Fasciclin; cl02663 317655002498 2-isopropylmalate synthase; Validated; Region: PRK03739 317655002499 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 317655002500 active site 317655002501 catalytic residues [active] 317655002502 metal binding site [ion binding]; metal-binding site 317655002503 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 317655002504 YceI-like domain; Region: YceI; cl01001 317655002505 PspC domain; Region: PspC; cl00864 317655002506 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 317655002507 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 317655002508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 317655002509 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 317655002510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655002511 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 317655002512 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 317655002513 DNA binding residues [nucleotide binding] 317655002514 DNA primase; Validated; Region: dnaG; PRK05667 317655002515 CHC2 zinc finger; Region: zf-CHC2; cl15369 317655002516 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 317655002517 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 317655002518 active site 317655002519 metal binding site [ion binding]; metal-binding site 317655002520 interdomain interaction site; other site 317655002521 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 317655002522 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 317655002523 GIY-YIG motif/motif A; other site 317655002524 putative active site [active] 317655002525 putative metal binding site [ion binding]; other site 317655002526 GatB domain; Region: GatB_Yqey; cl11497 317655002527 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 317655002528 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 317655002529 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 317655002530 catalytic site [active] 317655002531 subunit interface [polypeptide binding]; other site 317655002532 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 317655002533 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 317655002534 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655002535 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 317655002536 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 317655002537 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655002538 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 317655002539 IMP binding site; other site 317655002540 dimer interface [polypeptide binding]; other site 317655002541 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 317655002542 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 317655002543 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 317655002544 Rhomboid family; Region: Rhomboid; cl11446 317655002545 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 317655002546 dimer interface [polypeptide binding]; other site 317655002547 ADP-ribose binding site [chemical binding]; other site 317655002548 active site 317655002549 nudix motif; other site 317655002550 metal binding site [ion binding]; metal-binding site 317655002551 Repair protein; Region: Repair_PSII; cl01535 317655002552 Repair protein; Region: Repair_PSII; cl01535 317655002553 LemA family; Region: LemA; cl00742 317655002554 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 317655002555 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 317655002556 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 317655002557 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655002558 DNA binding residues [nucleotide binding] 317655002559 dimer interface [polypeptide binding]; other site 317655002560 putative metal binding site [ion binding]; other site 317655002561 Cation efflux family; Region: Cation_efflux; cl00316 317655002562 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 317655002563 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655002564 putative metal binding site [ion binding]; other site 317655002565 Fasciclin domain; Region: Fasciclin; cl02663 317655002566 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 317655002567 DNA photolyase; Region: DNA_photolyase; pfam00875 317655002568 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 317655002569 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 317655002570 PAS fold; Region: PAS; pfam00989 317655002571 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 317655002572 putative active site [active] 317655002573 heme pocket [chemical binding]; other site 317655002574 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 317655002575 DNA binding residues [nucleotide binding] 317655002576 dimerization interface [polypeptide binding]; other site 317655002577 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 317655002578 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655002579 Walker A/P-loop; other site 317655002580 ATP binding site [chemical binding]; other site 317655002581 Q-loop/lid; other site 317655002582 ABC transporter signature motif; other site 317655002583 Walker B; other site 317655002584 D-loop; other site 317655002585 H-loop/switch region; other site 317655002586 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 317655002587 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 317655002588 ABC-ATPase subunit interface; other site 317655002589 dimer interface [polypeptide binding]; other site 317655002590 putative PBP binding regions; other site 317655002591 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 317655002592 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 317655002593 intersubunit interface [polypeptide binding]; other site 317655002594 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 317655002595 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655002596 N-terminal plug; other site 317655002597 ligand-binding site [chemical binding]; other site 317655002598 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 317655002599 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 317655002600 dimer interface [polypeptide binding]; other site 317655002601 active site 317655002602 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 317655002603 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 317655002604 active site 317655002605 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 317655002606 AMP-binding enzyme; Region: AMP-binding; cl15778 317655002607 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 317655002608 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 317655002609 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 317655002610 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 317655002611 FMN binding site [chemical binding]; other site 317655002612 substrate binding site [chemical binding]; other site 317655002613 putative catalytic residue [active] 317655002614 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655002615 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655002616 N-terminal plug; other site 317655002617 ligand-binding site [chemical binding]; other site 317655002618 Helix-turn-helix domains; Region: HTH; cl00088 317655002619 Helix-turn-helix domains; Region: HTH; cl00088 317655002620 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 317655002621 H+ Antiporter protein; Region: 2A0121; TIGR00900 317655002622 putative substrate translocation pore; other site 317655002623 Sulfatase; Region: Sulfatase; cl10460 317655002624 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 317655002625 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 317655002626 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 317655002627 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655002628 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655002629 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655002630 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655002631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 317655002632 Putative glucoamylase; Region: Glycoamylase; pfam10091 317655002633 beta-D-glucuronidase; Provisional; Region: PRK10150 317655002634 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 317655002635 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 317655002636 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 317655002637 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 317655002638 putative catalytic site [active] 317655002639 putative metal binding site [ion binding]; other site 317655002640 putative phosphate binding site [ion binding]; other site 317655002641 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 317655002642 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 317655002643 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; cl12031 317655002644 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 317655002645 dimer interface [polypeptide binding]; other site 317655002646 conserved gate region; other site 317655002647 putative PBP binding loops; other site 317655002648 ABC-ATPase subunit interface; other site 317655002649 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 317655002650 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 317655002651 dimer interface [polypeptide binding]; other site 317655002652 conserved gate region; other site 317655002653 putative PBP binding loops; other site 317655002654 ABC-ATPase subunit interface; other site 317655002655 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 317655002656 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655002657 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655002658 DNA binding site [nucleotide binding] 317655002659 domain linker motif; other site 317655002660 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 317655002661 dimerization interface [polypeptide binding]; other site 317655002662 ligand binding site [chemical binding]; other site 317655002663 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 317655002664 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 317655002665 Walker A/P-loop; other site 317655002666 ATP binding site [chemical binding]; other site 317655002667 Q-loop/lid; other site 317655002668 ABC transporter signature motif; other site 317655002669 Walker B; other site 317655002670 D-loop; other site 317655002671 H-loop/switch region; other site 317655002672 TOBE domain; Region: TOBE_2; cl01440 317655002673 glucose/galactose transporter; Region: gluP; TIGR01272 317655002674 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 317655002675 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; cl09108 317655002676 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 key...; Region: CBS_pair_IMPDH; cd04601 317655002677 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 the guanine...; Region: IMPDH; cd00381 317655002678 active site 317655002679 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 317655002680 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; cl16911 317655002681 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 317655002682 binding surface 317655002683 Tetratricopeptide repeat; Region: TPR_16; pfam13432 317655002684 TPR motif; other site 317655002685 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 317655002686 agmatine deiminase; Region: agmatine_aguA; TIGR03380 317655002687 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 317655002688 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 317655002689 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 317655002690 PA/protease or protease-like domain interface [polypeptide binding]; other site 317655002691 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 317655002692 metal binding site [ion binding]; metal-binding site 317655002693 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 317655002694 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 317655002695 FAD binding pocket [chemical binding]; other site 317655002696 FAD binding motif [chemical binding]; other site 317655002697 phosphate binding motif [ion binding]; other site 317655002698 beta-alpha-beta structure motif; other site 317655002699 NAD binding pocket [chemical binding]; other site 317655002700 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 317655002701 putative acyl-acceptor binding pocket; other site 317655002702 Phospholipid methyltransferase; Region: PEMT; cl00763 317655002703 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 317655002704 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 317655002705 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 317655002706 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 317655002707 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; cl00214 317655002708 intersubunit interface [polypeptide binding]; other site 317655002709 active site 317655002710 Zn2+ binding site [ion binding]; other site 317655002711 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 317655002712 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 317655002713 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 317655002714 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655002715 EVE domain; Region: EVE; cl00728 317655002716 PilZ domain; Region: PilZ; cl01260 317655002717 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 317655002718 active site 317655002719 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 317655002720 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 317655002721 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 317655002722 dimer interface [polypeptide binding]; other site 317655002723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655002724 catalytic residue [active] 317655002725 enterobactin exporter EntS; Provisional; Region: PRK10489 317655002726 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; cl11420 317655002727 16S rRNA methyltransferase B; Provisional; Region: PRK10901 317655002728 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 317655002729 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 317655002730 S-adenosylmethionine binding site [chemical binding]; other site 317655002731 SapC; Region: SapC; pfam07277 317655002732 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 317655002733 FAD binding domain; Region: FAD_binding_4; pfam01565 317655002734 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 317655002735 DEAD-like helicases superfamily; Region: DEXDc; smart00487 317655002736 ATP binding site [chemical binding]; other site 317655002737 Mg++ binding site [ion binding]; other site 317655002738 motif III; other site 317655002739 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 317655002740 nucleotide binding region [chemical binding]; other site 317655002741 ATP-binding site [chemical binding]; other site 317655002742 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655002743 Winged helix-turn helix; Region: HTH_29; pfam13551 317655002744 Integrase core domain; Region: rve; cl01316 317655002745 Integrase core domain; Region: rve_3; cl15866 317655002746 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 317655002747 Prostaglandin dehydrogenases; Region: PGDH; cd05288 317655002748 NAD(P) binding site [chemical binding]; other site 317655002749 substrate binding site [chemical binding]; other site 317655002750 dimer interface [polypeptide binding]; other site 317655002751 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 317655002752 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; cl16911 317655002753 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 317655002754 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 317655002755 RNA binding surface [nucleotide binding]; other site 317655002756 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 317655002757 active site 317655002758 Response regulator receiver domain; Region: Response_reg; pfam00072 317655002759 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 317655002760 active site 317655002761 phosphorylation site [posttranslational modification] 317655002762 intermolecular recognition site; other site 317655002763 dimerization interface [polypeptide binding]; other site 317655002764 muropeptide transporter; Validated; Region: ampG; PRK11010 317655002765 muropeptide transporter; Reviewed; Region: ampG; PRK11902 317655002766 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 317655002767 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 317655002768 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 317655002769 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 317655002770 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 317655002771 substrate binding site [chemical binding]; other site 317655002772 active site 317655002773 catalytic residues [active] 317655002774 heterodimer interface [polypeptide binding]; other site 317655002775 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 317655002776 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 317655002777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655002778 catalytic residue [active] 317655002779 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 monomeric; Region: PRAI; cd00405 317655002780 active site 317655002781 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 contains two...; Region: OMP_decarboxylase_like; cd04725 317655002782 active site 317655002783 dimer interface [polypeptide binding]; other site 317655002784 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 317655002785 adenylosuccinate lyase; Provisional; Region: PRK07492 317655002786 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 317655002787 tetramer interface [polypeptide binding]; other site 317655002788 active site 317655002789 hypothetical protein; Reviewed; Region: PRK00024 317655002790 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 317655002791 MPN+ (JAMM) motif; other site 317655002792 Zinc-binding site [ion binding]; other site 317655002793 Dicarboxylate transport; Region: DctA-YdbH; cl14674 317655002794 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 317655002795 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 317655002796 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 317655002797 ATP synthase A chain; Region: ATP-synt_A; cl00413 317655002798 ATP synthase subunit C; Region: ATP-synt_C; cl00466 317655002799 Plant ATP synthase F0; Region: YMF19; cl07975 317655002800 Plant ATP synthase F0; Region: YMF19; cl07975 317655002801 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 317655002802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002803 NAD(P) binding site [chemical binding]; other site 317655002804 active site 317655002805 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 317655002806 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 317655002807 GIY-YIG motif/motif A; other site 317655002808 active site 317655002809 catalytic site [active] 317655002810 putative DNA binding site [nucleotide binding]; other site 317655002811 metal binding site [ion binding]; metal-binding site 317655002812 UvrB/uvrC motif; Region: UVR; pfam02151 317655002813 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 317655002814 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 317655002815 CoenzymeA binding site [chemical binding]; other site 317655002816 subunit interaction site [polypeptide binding]; other site 317655002817 PHB binding site; other site 317655002818 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 317655002819 Recombination protein O N terminal; Region: RecO_N; cl15812 317655002820 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 317655002821 tartrate dehydrogenase; Provisional; Region: PRK08194 317655002822 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 317655002823 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 317655002824 homodimer interface [polypeptide binding]; other site 317655002825 substrate-cofactor binding pocket; other site 317655002826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655002827 catalytic residue [active] 317655002828 Protein of unknown function (DUF525); Region: DUF525; cl01119 317655002829 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 317655002830 Helix-turn-helix domains; Region: HTH; cl00088 317655002831 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 317655002832 dimerization interface [polypeptide binding]; other site 317655002833 TM2 domain; Region: TM2; cl00984 317655002834 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655002835 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 317655002836 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 317655002837 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 317655002838 anchoring element; other site 317655002839 dimer interface [polypeptide binding]; other site 317655002840 ATP binding site [chemical binding]; other site 317655002841 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 317655002842 active site 317655002843 putative metal-binding site [ion binding]; other site 317655002844 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 317655002845 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 317655002846 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 317655002847 CoenzymeA binding site [chemical binding]; other site 317655002848 subunit interaction site [polypeptide binding]; other site 317655002849 PHB binding site; other site 317655002850 GcrA cell cycle regulator; Region: GcrA; cl11564 317655002851 GcrA cell cycle regulator; Region: GcrA; cl11564 317655002852 ABC-2 type transporter; Region: ABC2_membrane; cl11417 317655002853 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 317655002854 Yip1 domain; Region: Yip1; cl12048 317655002855 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 317655002856 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655002857 translocation protein TolB; Provisional; Region: tolB; PRK03629 317655002858 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 317655002859 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655002860 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 317655002861 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 317655002862 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 317655002863 active site 317655002864 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655002865 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655002866 putative S-transferase; Provisional; Region: PRK11752 317655002867 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 317655002868 C-terminal domain interface [polypeptide binding]; other site 317655002869 GSH binding site (G-site) [chemical binding]; other site 317655002870 dimer interface [polypeptide binding]; other site 317655002871 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 317655002872 dimer interface [polypeptide binding]; other site 317655002873 N-terminal domain interface [polypeptide binding]; other site 317655002874 active site 317655002875 Predicted membrane protein [Function unknown]; Region: COG4655 317655002876 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 317655002877 PAS domain; Region: PAS_9; pfam13426 317655002878 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 317655002879 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 317655002880 FAD binding site [chemical binding]; other site 317655002881 substrate binding site [chemical binding]; other site 317655002882 catalytic base [active] 317655002883 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 317655002884 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 317655002885 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 317655002886 active site 317655002887 Secretin and TonB N terminus short domain; Region: STN; cl06624 317655002888 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655002889 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655002890 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 317655002891 FecR protein; Region: FecR; pfam04773 317655002892 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 317655002893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655002894 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655002895 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 317655002896 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 317655002897 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 317655002898 glucokinase, proteobacterial type; Region: glk; TIGR00749 317655002899 Peptidase C26; Region: Peptidase_C26; pfam07722 317655002900 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 317655002901 catalytic triad [active] 317655002902 Protein of unknown function (DUF808); Region: DUF808; cl01002 317655002903 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 317655002904 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 317655002905 Walker A/P-loop; other site 317655002906 ATP binding site [chemical binding]; other site 317655002907 Q-loop/lid; other site 317655002908 ABC transporter signature motif; other site 317655002909 Walker B; other site 317655002910 D-loop; other site 317655002911 H-loop/switch region; other site 317655002912 TOBE domain; Region: TOBE_2; cl01440 317655002913 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 317655002914 dimer interface [polypeptide binding]; other site 317655002915 conserved gate region; other site 317655002916 putative PBP binding loops; other site 317655002917 ABC-ATPase subunit interface; other site 317655002918 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 317655002919 dimer interface [polypeptide binding]; other site 317655002920 conserved gate region; other site 317655002921 putative PBP binding loops; other site 317655002922 ABC-ATPase subunit interface; other site 317655002923 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 317655002924 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 317655002925 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 317655002926 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 317655002927 aminotransferase; Validated; Region: PRK07046 317655002928 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 317655002929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655002930 catalytic residue [active] 317655002931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655002932 FAD dependent oxidoreductase; Region: DAO; pfam01266 317655002933 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 317655002934 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 317655002935 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 317655002936 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 317655002937 inhibitor-cofactor binding pocket; inhibition site 317655002938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655002939 catalytic residue [active] 317655002940 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 317655002941 dimer interface [polypeptide binding]; other site 317655002942 phosphorylation site [posttranslational modification] 317655002943 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 317655002944 ATP binding site [chemical binding]; other site 317655002945 Mg2+ binding site [ion binding]; other site 317655002946 G-X-G motif; other site 317655002947 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 317655002948 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655002949 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 317655002950 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655002951 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 317655002952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655002953 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 317655002954 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 317655002955 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 317655002956 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 317655002957 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 317655002958 BON domain; Region: BON; cl02771 317655002959 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 317655002960 SAF domain; Region: SAF; cl00555 317655002961 FAD dependent oxidoreductase; Region: DAO; pfam01266 317655002962 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 317655002963 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 317655002964 RNA/DNA hybrid binding site [nucleotide binding]; other site 317655002965 active site 317655002966 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 317655002967 Phosphotransferase enzyme family; Region: APH; pfam01636 317655002968 putative active site [active] 317655002969 putative substrate binding site [chemical binding]; other site 317655002970 ATP binding site [chemical binding]; other site 317655002971 LytB protein; Region: LYTB; cl00507 317655002972 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 317655002973 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 317655002974 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 317655002975 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 317655002976 active site 317655002977 HIGH motif; other site 317655002978 KMSK motif region; other site 317655002979 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 317655002980 tRNA binding surface [nucleotide binding]; other site 317655002981 anticodon binding site; other site 317655002982 Sporulation related domain; Region: SPOR; cl10051 317655002983 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 317655002984 ScpA/B protein; Region: ScpA_ScpB; cl00598 317655002985 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 317655002986 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 317655002987 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 317655002988 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 317655002989 Entericidin EcnA/B family; Region: Entericidin; cl02322 317655002990 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 317655002991 MgtE intracellular N domain; Region: MgtE_N; cl15244 317655002992 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 317655002993 Divalent cation transporter; Region: MgtE; cl00786 317655002994 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 317655002995 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 317655002996 active site 317655002997 Nitronate monooxygenase; Region: NMO; pfam03060 317655002998 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 317655002999 FMN binding site [chemical binding]; other site 317655003000 substrate binding site [chemical binding]; other site 317655003001 putative catalytic residue [active] 317655003002 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 317655003003 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 317655003004 dimerization interface [polypeptide binding]; other site 317655003005 active site 317655003006 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 317655003007 B1 nucleotide binding pocket [chemical binding]; other site 317655003008 B2 nucleotide binding pocket [chemical binding]; other site 317655003009 CAS motifs; other site 317655003010 active site 317655003011 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 317655003012 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 317655003013 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 317655003014 MoaE interaction surface [polypeptide binding]; other site 317655003015 MoeB interaction surface [polypeptide binding]; other site 317655003016 thiocarboxylated glycine; other site 317655003017 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 317655003018 MoaE homodimer interface [polypeptide binding]; other site 317655003019 MoaD interaction [polypeptide binding]; other site 317655003020 active site residues [active] 317655003021 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 317655003022 Helix-turn-helix domains; Region: HTH; cl00088 317655003023 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 317655003024 dimerization interface [polypeptide binding]; other site 317655003025 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 317655003026 Ca2+ binding site [ion binding]; other site 317655003027 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 317655003028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003029 YhhN-like protein; Region: YhhN; cl01505 317655003030 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 317655003031 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 317655003032 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 317655003033 catalytic triad [active] 317655003034 Protein of unknown function (DUF952); Region: DUF952; cl01393 317655003035 DNA gyrase subunit A; Validated; Region: PRK05560 317655003036 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 in DNA...; Region: TOP4c; cd00187 317655003037 CAP-like domain; other site 317655003038 active site 317655003039 primary dimer interface [polypeptide binding]; other site 317655003040 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 317655003041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 317655003042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 317655003043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 317655003044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003045 NAD(P) binding site [chemical binding]; other site 317655003046 active site 317655003047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655003048 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 317655003049 ATP binding site [chemical binding]; other site 317655003050 Mg2+ binding site [ion binding]; other site 317655003051 G-X-G motif; other site 317655003052 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 317655003053 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 317655003054 ligand binding site [chemical binding]; other site 317655003055 flexible hinge region; other site 317655003056 Helix-turn-helix domains; Region: HTH; cl00088 317655003057 CTP synthetase; Validated; Region: pyrG; PRK05380 317655003058 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 317655003059 Catalytic site [active] 317655003060 active site 317655003061 UTP binding site [chemical binding]; other site 317655003062 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 317655003063 active site 317655003064 putative oxyanion hole; other site 317655003065 catalytic triad [active] 317655003066 Preprotein translocase SecG subunit; Region: SecG; cl09123 317655003067 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 317655003068 substrate binding site [chemical binding]; other site 317655003069 dimer interface [polypeptide binding]; other site 317655003070 catalytic triad [active] 317655003071 SurA N-terminal domain; Region: SurA_N_3; cl07813 317655003072 PPIC-type PPIASE domain; Region: Rotamase; cl08278 317655003073 anthranilate synthase component I; Provisional; Region: PRK13573 317655003074 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 317655003075 chorismate binding enzyme; Region: Chorismate_bind; cl10555 317655003076 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 317655003077 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 317655003078 FtsX-like permease family; Region: FtsX; cl15850 317655003079 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 317655003080 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 317655003081 Walker A/P-loop; other site 317655003082 ATP binding site [chemical binding]; other site 317655003083 Q-loop/lid; other site 317655003084 ABC transporter signature motif; other site 317655003085 Walker B; other site 317655003086 D-loop; other site 317655003087 H-loop/switch region; other site 317655003088 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 317655003089 catalytic residues [active] 317655003090 dimer interface [polypeptide binding]; other site 317655003091 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 317655003092 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 317655003093 Protein of unknown function, DUF655; Region: DUF655; pfam04919 317655003094 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 317655003095 generic binding surface II; other site 317655003096 generic binding surface I; other site 317655003097 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 317655003098 AMP-binding enzyme; Region: AMP-binding; cl15778 317655003099 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655003100 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 317655003101 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 317655003102 FeS/SAM binding site; other site 317655003103 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 317655003104 MPT binding site; other site 317655003105 trimer interface [polypeptide binding]; other site 317655003106 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 317655003107 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 catalyze...; Region: LT_GEWL; cd00254 317655003108 N-acetyl-D-glucosamine binding site [chemical binding]; other site 317655003109 catalytic residue [active] 317655003110 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 317655003111 active site 317655003112 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 317655003113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003114 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 317655003115 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 317655003116 binding surface 317655003117 TPR motif; other site 317655003118 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 317655003119 N-formylglutamate amidohydrolase; Region: FGase; cl01522 317655003120 Dehydratase family; Region: ILVD_EDD; cl00340 317655003121 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 317655003122 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 317655003123 putative substrate binding site [chemical binding]; other site 317655003124 putative ATP binding site [chemical binding]; other site 317655003125 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 317655003126 MAPEG family; Region: MAPEG; cl09190 317655003127 MAPEG family; Region: MAPEG; cl09190 317655003128 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655003129 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655003130 H+ Antiporter protein; Region: 2A0121; TIGR00900 317655003131 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 317655003132 putative substrate translocation pore; other site 317655003133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 317655003134 dimer interface [polypeptide binding]; other site 317655003135 active site 317655003136 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655003137 catalytic residues [active] 317655003138 substrate binding site [chemical binding]; other site 317655003139 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 317655003140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 317655003141 dimer interface [polypeptide binding]; other site 317655003142 active site 317655003143 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655003144 catalytic residues [active] 317655003145 substrate binding site [chemical binding]; other site 317655003146 Protein of unknown function, DUF486; Region: DUF486; cl01236 317655003147 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655003148 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 317655003149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003150 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 317655003151 tetramer interface [polypeptide binding]; other site 317655003152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655003153 catalytic residue [active] 317655003154 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 317655003155 YceI-like domain; Region: YceI; cl01001 317655003156 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 317655003157 putative FMN binding site [chemical binding]; other site 317655003158 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 317655003159 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 317655003160 substrate-cofactor binding pocket; other site 317655003161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655003162 catalytic residue [active] 317655003163 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 317655003164 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 317655003165 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 317655003166 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 317655003167 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 317655003168 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 317655003169 active site 317655003170 interdomain interaction site; other site 317655003171 putative metal-binding site [ion binding]; other site 317655003172 nucleotide binding site [chemical binding]; other site 317655003173 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 317655003174 domain I; other site 317655003175 DNA binding groove [nucleotide binding] 317655003176 phosphate binding site [ion binding]; other site 317655003177 domain II; other site 317655003178 domain III; other site 317655003179 nucleotide binding site [chemical binding]; other site 317655003180 catalytic site [active] 317655003181 domain IV; other site 317655003182 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 317655003183 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 317655003184 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 317655003185 GTPase Era; Reviewed; Region: era; PRK00089 317655003186 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 317655003187 G1 box; other site 317655003188 GTP/Mg2+ binding site [chemical binding]; other site 317655003189 Switch I region; other site 317655003190 G2 box; other site 317655003191 Switch II region; other site 317655003192 G3 box; other site 317655003193 G4 box; other site 317655003194 G5 box; other site 317655003195 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; cl00098 317655003196 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 317655003197 dimerization interface [polypeptide binding]; other site 317655003198 active site 317655003199 metal binding site [ion binding]; metal-binding site 317655003200 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 317655003201 signal peptidase I; Provisional; Region: PRK10861 317655003202 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 317655003203 Catalytic site [active] 317655003204 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 317655003205 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 317655003206 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 317655003207 active site 317655003208 dimer interface [polypeptide binding]; other site 317655003209 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 317655003210 dimer interface [polypeptide binding]; other site 317655003211 active site 317655003212 glutathione reductase; Validated; Region: PRK06116 317655003213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655003214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655003215 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 317655003216 non-specific DNA binding site [nucleotide binding]; other site 317655003217 salt bridge; other site 317655003218 sequence-specific DNA binding site [nucleotide binding]; other site 317655003219 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 317655003220 Domain of unknown function (DUF955); Region: DUF955; cl01076 317655003221 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 317655003222 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655003223 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 317655003224 dimer interface [polypeptide binding]; other site 317655003225 substrate binding site [chemical binding]; other site 317655003226 metal binding site [ion binding]; metal-binding site 317655003227 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 317655003228 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 317655003229 active site 317655003230 substrate binding site [chemical binding]; other site 317655003231 coenzyme B12 binding site [chemical binding]; other site 317655003232 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 317655003233 B12 binding site [chemical binding]; other site 317655003234 cobalt ligand [ion binding]; other site 317655003235 biotin synthetase; Region: bioB; TIGR00433 317655003236 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 317655003237 FeS/SAM binding site; other site 317655003238 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 317655003239 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 317655003240 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 317655003241 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655003242 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 317655003243 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 317655003244 carboxyltransferase (CT) interaction site; other site 317655003245 biotinylation site [posttranslational modification]; other site 317655003246 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 317655003247 dimer interface [polypeptide binding]; other site 317655003248 putative tRNA-binding site [nucleotide binding]; other site 317655003249 Putative cyclase; Region: Cyclase; cl00814 317655003250 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 317655003251 putative substrate translocation pore; other site 317655003252 metabolite-proton symporter; Region: 2A0106; TIGR00883 317655003253 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 317655003254 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 317655003255 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655003256 catalytic residue [active] 317655003257 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003258 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003259 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 317655003261 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 317655003262 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 317655003263 prolyl-tRNA synthetase; Provisional; Region: PRK08661 317655003264 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 formation of...; Region: ProRS_core_arch_euk; cd00778 317655003265 dimer interface [polypeptide binding]; other site 317655003266 motif 1; other site 317655003267 active site 317655003268 motif 2; other site 317655003269 motif 3; other site 317655003270 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 317655003271 anticodon binding site; other site 317655003272 ribonuclease R; Region: RNase_R; TIGR02063 317655003273 RNB domain; Region: RNB; pfam00773 317655003274 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 play an important...; Region: S1_RNase_R; cd04471 317655003275 RNA binding site [nucleotide binding]; other site 317655003276 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 317655003277 non-specific DNA binding site [nucleotide binding]; other site 317655003278 salt bridge; other site 317655003279 sequence-specific DNA binding site [nucleotide binding]; other site 317655003280 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 317655003281 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 317655003282 E3 interaction surface; other site 317655003283 lipoyl attachment site [posttranslational modification]; other site 317655003284 e3 binding domain; Region: E3_binding; pfam02817 317655003285 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 317655003286 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 317655003287 putative active site [active] 317655003288 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 317655003289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003290 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655003291 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655003292 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 317655003293 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 317655003294 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 317655003295 active site 317655003296 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 317655003297 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 317655003298 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 317655003299 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655003300 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655003301 active site 317655003302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655003303 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655003304 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655003305 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 317655003306 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 317655003307 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 317655003308 dimer interface [polypeptide binding]; other site 317655003309 active site 317655003310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003311 NAD(P) binding site [chemical binding]; other site 317655003312 active site 317655003313 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655003314 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655003315 active site 317655003316 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655003317 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655003318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655003319 active site 317655003320 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 317655003321 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 317655003322 FMN binding site [chemical binding]; other site 317655003323 substrate binding site [chemical binding]; other site 317655003324 putative catalytic residue [active] 317655003325 AIPR protein; Region: AIPR; pfam10592 317655003326 transposase/IS protein; Provisional; Region: PRK09183 317655003327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 317655003329 Integrase core domain; Region: rve; cl01316 317655003330 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 317655003331 Transglycosylase SLT domain; Region: SLT_2; pfam13406 317655003332 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 317655003333 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 317655003334 2-oxoglutarate decarboxylase/ hydro-lyase/ magnesium ion binding / thiamin pyrophosphate binding; Region: PLN02980 317655003335 Sporulation related domain; Region: SPOR; cl10051 317655003336 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 317655003337 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655003338 thymidylate kinase; Validated; Region: tmk; PRK00698 317655003339 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 317655003340 TMP-binding site; other site 317655003341 ATP-binding site [chemical binding]; other site 317655003342 DNA polymerase III subunit delta'; Validated; Region: PRK07471 317655003343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003344 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 317655003345 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 317655003346 active site 317655003347 HIGH motif; other site 317655003348 KMSKS motif; other site 317655003349 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 317655003350 tRNA binding surface [nucleotide binding]; other site 317655003351 anticodon binding site; other site 317655003352 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 317655003353 active site 317655003354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655003355 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 317655003356 ANTAR domain; Region: ANTAR; cl04297 317655003357 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 317655003358 NMT1-like family; Region: NMT1_2; cl15260 317655003359 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 317655003360 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 317655003361 putative substrate translocation pore; other site 317655003362 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 317655003363 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 317655003364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655003365 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 317655003366 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 317655003367 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 317655003368 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 317655003369 [2Fe-2S] cluster binding site [ion binding]; other site 317655003370 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 317655003371 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 317655003372 [4Fe-4S] binding site [ion binding]; other site 317655003373 molybdopterin cofactor binding site; other site 317655003374 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 317655003375 molybdopterin cofactor binding site; other site 317655003376 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 317655003377 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 317655003378 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 317655003379 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 317655003380 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 317655003381 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 317655003382 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 317655003383 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 317655003384 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 317655003385 HflX GTPase family; Region: HflX; cd01878 317655003386 G1 box; other site 317655003387 GTP/Mg2+ binding site [chemical binding]; other site 317655003388 Switch I region; other site 317655003389 G2 box; other site 317655003390 G3 box; other site 317655003391 Switch II region; other site 317655003392 G4 box; other site 317655003393 G5 box; other site 317655003394 RNA-binding protein Hfq; Provisional; Region: PRK14091 317655003395 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 317655003396 Sm1 motif; other site 317655003397 intra - hexamer interaction site; other site 317655003398 inter - hexamer interaction site [polypeptide binding]; other site 317655003399 nucleotide binding pocket [chemical binding]; other site 317655003400 Sm2 motif; other site 317655003401 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 317655003402 Sm1 motif; other site 317655003403 D1 - D2 interaction site; other site 317655003404 D3 - B interaction site; other site 317655003405 Hfq - Hfq interaction site; other site 317655003406 RNA binding pocket [nucleotide binding]; other site 317655003407 Sm2 motif; other site 317655003408 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655003409 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 317655003410 active site 317655003411 phosphorylation site [posttranslational modification] 317655003412 intermolecular recognition site; other site 317655003413 dimerization interface [polypeptide binding]; other site 317655003414 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 317655003415 Walker A motif; other site 317655003416 ATP binding site [chemical binding]; other site 317655003417 Walker B motif; other site 317655003418 arginine finger; other site 317655003419 Helix-turn-helix domains; Region: HTH; cl00088 317655003420 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 317655003421 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 317655003422 dimerization interface [polypeptide binding]; other site 317655003423 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 317655003424 dimer interface [polypeptide binding]; other site 317655003425 phosphorylation site [posttranslational modification] 317655003426 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 317655003427 ATP binding site [chemical binding]; other site 317655003428 Mg2+ binding site [ion binding]; other site 317655003429 G-X-G motif; other site 317655003430 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 317655003431 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 317655003432 active site 317655003433 phosphorylation site [posttranslational modification] 317655003434 intermolecular recognition site; other site 317655003435 dimerization interface [polypeptide binding]; other site 317655003436 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 317655003437 Walker A motif; other site 317655003438 ATP binding site [chemical binding]; other site 317655003439 Walker B motif; other site 317655003440 arginine finger; other site 317655003441 Helix-turn-helix domains; Region: HTH; cl00088 317655003442 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 317655003443 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 317655003444 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 317655003445 dimer interface [polypeptide binding]; other site 317655003446 phosphorylation site [posttranslational modification] 317655003447 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 317655003448 ATP binding site [chemical binding]; other site 317655003449 Mg2+ binding site [ion binding]; other site 317655003450 G-X-G motif; other site 317655003451 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 317655003452 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 317655003453 FMN binding site [chemical binding]; other site 317655003454 active site 317655003455 catalytic residues [active] 317655003456 substrate binding site [chemical binding]; other site 317655003457 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 317655003458 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 317655003459 substrate binding site; other site 317655003460 dimer interface; other site 317655003461 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 317655003462 homotrimer interaction site [polypeptide binding]; other site 317655003463 zinc binding site [ion binding]; other site 317655003464 CDP-binding sites; other site 317655003465 Competence-damaged protein; Region: CinA; cl00666 317655003466 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 317655003467 putative coenzyme Q binding site [chemical binding]; other site 317655003468 lipoyl synthase; Provisional; Region: PRK05481 317655003469 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 317655003470 FeS/SAM binding site; other site 317655003471 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 317655003472 active site clefts [active] 317655003473 zinc binding site [ion binding]; other site 317655003474 dimer interface [polypeptide binding]; other site 317655003475 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 317655003476 CoenzymeA binding site [chemical binding]; other site 317655003477 subunit interaction site [polypeptide binding]; other site 317655003478 PHB binding site; other site 317655003479 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 317655003480 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655003481 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655003482 ABC transporter; Region: ABC_tran_2; pfam12848 317655003483 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655003484 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 317655003485 putative active site [active] 317655003486 putative catalytic site [active] 317655003487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655003488 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 317655003489 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 317655003490 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 317655003491 putative DNA binding site [nucleotide binding]; other site 317655003492 putative Zn2+ binding site [ion binding]; other site 317655003493 Helix-turn-helix domains; Region: HTH; cl00088 317655003494 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 317655003495 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 317655003496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655003497 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 317655003498 Type III pantothenate kinase; Region: Pan_kinase; cl09130 317655003499 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 317655003500 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 317655003501 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 317655003502 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 317655003503 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 317655003504 NADH-ubiquinone oxidoreductase chain 4, amino terminus; Region: Oxidored_q5_N; pfam01059 317655003505 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 317655003506 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 317655003507 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 317655003508 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 317655003509 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 317655003510 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 317655003511 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 317655003512 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 317655003513 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 317655003514 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 317655003515 4Fe-4S binding domain; Region: Fer4; cl02805 317655003516 4Fe-4S binding domain; Region: Fer4; cl02805 317655003517 NADH dehydrogenase; Region: NADHdh; cl00469 317655003518 NADH dehydrogenase subunit G; Validated; Region: PRK09130 317655003519 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 317655003520 catalytic loop [active] 317655003521 iron binding site [ion binding]; other site 317655003522 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 317655003523 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 317655003524 molybdopterin cofactor binding site; other site 317655003525 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 317655003526 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 317655003527 SLBB domain; Region: SLBB; pfam10531 317655003528 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 317655003529 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 317655003530 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 317655003531 putative dimer interface [polypeptide binding]; other site 317655003532 [2Fe-2S] cluster binding site [ion binding]; other site 317655003533 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 317655003534 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 317655003535 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 317655003536 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 317655003537 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 317655003538 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 317655003539 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 317655003540 active site 317655003541 dimerization interface [polypeptide binding]; other site 317655003542 elongation factor P; Validated; Region: PRK00529 317655003543 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 317655003544 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 317655003545 RNA binding site [nucleotide binding]; other site 317655003546 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 317655003547 RNA binding site [nucleotide binding]; other site 317655003548 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 317655003549 thiamine phosphate binding site [chemical binding]; other site 317655003550 active site 317655003551 pyrophosphate binding site [ion binding]; other site 317655003552 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; cl09108 317655003553 catalytic residue [active] 317655003554 Phosphoglycerate kinase; Region: PGK; pfam00162 317655003555 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; cl00198 317655003556 substrate binding site [chemical binding]; other site 317655003557 hinge regions; other site 317655003558 ADP binding site [chemical binding]; other site 317655003559 catalytic site [active] 317655003560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003561 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 317655003562 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 317655003563 transketolase; Reviewed; Region: PRK05899 317655003564 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 317655003565 TPP-binding site [chemical binding]; other site 317655003566 dimer interface [polypeptide binding]; other site 317655003567 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 317655003568 PYR/PP interface [polypeptide binding]; other site 317655003569 dimer interface [polypeptide binding]; other site 317655003570 TPP binding site [chemical binding]; other site 317655003571 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 317655003572 Cell division protein ZapA; Region: ZapA; cl01146 317655003573 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 317655003574 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 317655003575 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 317655003576 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655003577 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655003578 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655003579 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655003580 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 317655003581 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 317655003582 E3 interaction surface; other site 317655003583 lipoyl attachment site [posttranslational modification]; other site 317655003584 e3 binding domain; Region: E3_binding; pfam02817 317655003585 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 317655003586 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 317655003587 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 317655003588 alpha subunit interface [polypeptide binding]; other site 317655003589 TPP binding site [chemical binding]; other site 317655003590 heterodimer interface [polypeptide binding]; other site 317655003591 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 317655003592 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 317655003593 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 317655003594 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 317655003595 tetramer interface [polypeptide binding]; other site 317655003596 TPP-binding site [chemical binding]; other site 317655003597 heterodimer interface [polypeptide binding]; other site 317655003598 phosphorylation loop region [posttranslational modification] 317655003599 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 317655003600 dimerization interface [polypeptide binding]; other site 317655003601 active site 317655003602 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 317655003603 N-formylglutamate amidohydrolase; Region: FGase; cl01522 317655003604 Response regulator receiver domain; Region: Response_reg; pfam00072 317655003605 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 317655003606 active site 317655003607 phosphorylation site [posttranslational modification] 317655003608 intermolecular recognition site; other site 317655003609 dimerization interface [polypeptide binding]; other site 317655003610 short chain dehydrogenase; Provisional; Region: PRK07576 317655003611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003612 NAD(P) binding site [chemical binding]; other site 317655003613 active site 317655003614 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; cl12031 317655003615 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655003616 Gram-negative bacterial tonB protein; Region: TonB; cl10048 317655003617 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 317655003618 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 317655003619 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655003620 active site 317655003621 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 317655003622 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 317655003623 cytochrome b; Provisional; Region: CYTB; MTH00156 317655003624 interchain domain interface [polypeptide binding]; other site 317655003625 intrachain domain interface; other site 317655003626 heme bH binding site [chemical binding]; other site 317655003627 Qi binding site; other site 317655003628 heme bL binding site [chemical binding]; other site 317655003629 Qo binding site; other site 317655003630 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 317655003631 interchain domain interface [polypeptide binding]; other site 317655003632 intrachain domain interface; other site 317655003633 Qi binding site; other site 317655003634 Qo binding site; other site 317655003635 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 317655003636 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 317655003637 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 317655003638 [2Fe-2S] cluster binding site [ion binding]; other site 317655003639 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 317655003640 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 317655003641 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 317655003642 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655003643 Winged helix-turn helix; Region: HTH_29; pfam13551 317655003644 Integrase core domain; Region: rve; cl01316 317655003645 Integrase core domain; Region: rve_3; cl15866 317655003646 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 317655003647 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 317655003648 FeS/SAM binding site; other site 317655003649 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 317655003650 Ligand Binding Site [chemical binding]; other site 317655003651 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 317655003652 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 317655003653 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 317655003654 dimerization interface [polypeptide binding]; other site 317655003655 domain crossover interface; other site 317655003656 redox-dependent activation switch; other site 317655003657 ornithine carbamoyltransferase; Provisional; Region: PRK00779 317655003658 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 317655003659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003660 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 317655003661 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 317655003662 inhibitor-cofactor binding pocket; inhibition site 317655003663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655003664 catalytic residue [active] 317655003665 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 317655003666 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 317655003667 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 317655003668 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 317655003669 putative DNA binding site [nucleotide binding]; other site 317655003670 putative Zn2+ binding site [ion binding]; other site 317655003671 Helix-turn-helix domains; Region: HTH; cl00088 317655003672 LysE type translocator; Region: LysE; cl00565 317655003673 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 317655003674 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 317655003675 active site 317655003676 catalytic tetrad [active] 317655003677 Protein of unknown function, DUF; Region: DUF411; cl01142 317655003678 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 317655003679 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 317655003680 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 317655003681 glutaminase active site [active] 317655003682 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 317655003683 dimer interface [polypeptide binding]; other site 317655003684 active site 317655003685 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 317655003686 dimer interface [polypeptide binding]; other site 317655003687 active site 317655003688 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 317655003689 oligomeric interface; other site 317655003690 putative active site [active] 317655003691 homodimer interface [polypeptide binding]; other site 317655003692 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 317655003693 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 317655003694 Substrate binding site; other site 317655003695 Mg++ binding site; other site 317655003696 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 317655003697 active site 317655003698 substrate binding site [chemical binding]; other site 317655003699 CoA binding site [chemical binding]; other site 317655003700 phosphoglycolate phosphatase; Provisional; Region: PRK13222 317655003701 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 317655003702 motif II; other site 317655003703 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_HprK; cl00270 317655003704 active site 317655003705 metal-binding site [ion binding] 317655003706 nucleotide-binding site [chemical binding]; other site 317655003707 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 317655003708 Helix-turn-helix domains; Region: HTH; cl00088 317655003709 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 317655003710 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003711 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 317655003712 maleylacetoacetate isomerase; Region: maiA; TIGR01262 317655003713 C-terminal domain interface [polypeptide binding]; other site 317655003714 GSH binding site (G-site) [chemical binding]; other site 317655003715 putative dimer interface [polypeptide binding]; other site 317655003716 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 317655003717 dimer interface [polypeptide binding]; other site 317655003718 N-terminal domain interface [polypeptide binding]; other site 317655003719 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 317655003720 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 317655003721 Cytochrome c; Region: Cytochrom_C; cl11414 317655003722 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 317655003723 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 317655003724 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 317655003725 aspartate racemase; Region: asp_race; TIGR00035 317655003726 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 317655003727 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 317655003728 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 317655003729 N-carbamolyputrescine amidase; Region: PLN02747 317655003730 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 317655003731 putative active site; other site 317655003732 catalytic triad [active] 317655003733 putative dimer interface [polypeptide binding]; other site 317655003734 PilZ domain; Region: PilZ; cl01260 317655003735 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 317655003736 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 317655003737 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 317655003738 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 317655003739 Cupin domain; Region: Cupin_2; cl09118 317655003740 Cupin domain; Region: Cupin_2; cl09118 317655003741 Predicted amidohydrolase [General function prediction only]; Region: COG0388 317655003742 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 317655003743 putative active site [active] 317655003744 catalytic triad [active] 317655003745 putative dimer interface [polypeptide binding]; other site 317655003746 kynureninase; Region: kynureninase; TIGR01814 317655003747 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 317655003748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655003749 catalytic residue [active] 317655003750 Putative cyclase; Region: Cyclase; cl00814 317655003751 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 317655003752 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 317655003753 cofactor binding site; other site 317655003754 metal binding site [ion binding]; metal-binding site 317655003755 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 317655003756 Helix-turn-helix domains; Region: HTH; cl00088 317655003757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655003758 metal binding site [ion binding]; metal-binding site 317655003759 active site 317655003760 I-site; other site 317655003761 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 317655003762 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; cl11420 317655003763 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 317655003764 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 317655003765 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; cl16911 317655003766 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 317655003767 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 317655003768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655003769 catalytic residue [active] 317655003770 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 317655003771 Protein of unknown function (DUF983); Region: DUF983; cl02211 317655003772 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 317655003773 Subunit III/VIIa interface [polypeptide binding]; other site 317655003774 Phospholipid binding site [chemical binding]; other site 317655003775 Subunit I/III interface [polypeptide binding]; other site 317655003776 Subunit III/VIb interface [polypeptide binding]; other site 317655003777 Subunit III/VIa interface; other site 317655003778 Subunit III/Vb interface [polypeptide binding]; other site 317655003779 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 317655003780 UbiA prenyltransferase family; Region: UbiA; cl00337 317655003781 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 317655003782 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 317655003783 Subunit I/III interface [polypeptide binding]; other site 317655003784 D-pathway; other site 317655003785 Subunit I/VIIc interface [polypeptide binding]; other site 317655003786 Subunit I/IV interface [polypeptide binding]; other site 317655003787 Subunit I/II interface [polypeptide binding]; other site 317655003788 Low-spin heme (heme a) binding site [chemical binding]; other site 317655003789 Subunit I/VIIa interface [polypeptide binding]; other site 317655003790 Subunit I/VIa interface [polypeptide binding]; other site 317655003791 Dimer interface; other site 317655003792 Putative water exit pathway; other site 317655003793 Binuclear center (heme a3/CuB) [ion binding]; other site 317655003794 K-pathway; other site 317655003795 Subunit I/Vb interface [polypeptide binding]; other site 317655003796 Putative proton exit pathway; other site 317655003797 Subunit I/VIb interface; other site 317655003798 Subunit I/VIc interface [polypeptide binding]; other site 317655003799 Electron transfer pathway; other site 317655003800 Subunit I/VIIIb interface [polypeptide binding]; other site 317655003801 Subunit I/VIIb interface [polypeptide binding]; other site 317655003802 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 317655003803 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 317655003804 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655003805 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 317655003806 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655003807 active site 317655003808 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 317655003809 active site 317655003810 hydrophilic channel; other site 317655003811 dimerization interface [polypeptide binding]; other site 317655003812 catalytic residues [active] 317655003813 active site lid [active] 317655003814 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 317655003815 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 317655003816 Catalytic site [active] 317655003817 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 317655003818 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 317655003819 Domain of unknown function DUF20; Region: UPF0118; pfam01594 317655003820 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 317655003821 cytosine deaminase; Provisional; Region: PRK05985 317655003822 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 317655003823 Amidohydrolase; Region: Amidohydro_4; pfam13147 317655003824 active site 317655003825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003826 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 317655003827 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 317655003828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003829 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 317655003830 catalytic core [active] 317655003831 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 317655003832 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 317655003833 DNA binding residues [nucleotide binding] 317655003834 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 317655003835 IHF dimer interface [polypeptide binding]; other site 317655003836 IHF - DNA interface [nucleotide binding]; other site 317655003837 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 317655003838 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 317655003839 dimer interface [polypeptide binding]; other site 317655003840 active site 317655003841 CoA binding pocket [chemical binding]; other site 317655003842 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 317655003843 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 317655003844 MAPEG family; Region: MAPEG; cl09190 317655003845 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 317655003846 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655003847 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 317655003848 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 317655003849 catalytic motif [active] 317655003850 Catalytic residue [active] 317655003851 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 317655003852 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 317655003853 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 317655003854 active site 317655003855 substrate binding pocket [chemical binding]; other site 317655003856 dimer interface [polypeptide binding]; other site 317655003857 Predicted permeases [General function prediction only]; Region: RarD; COG2962 317655003858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 317655003859 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655003860 CsbD-like; Region: CsbD; cl15799 317655003861 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 317655003862 trimer interface [polypeptide binding]; other site 317655003863 active site 317655003864 dimer interface [polypeptide binding]; other site 317655003865 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 317655003866 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 317655003867 carboxyltransferase (CT) interaction site; other site 317655003868 biotinylation site [posttranslational modification]; other site 317655003869 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 317655003870 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 317655003871 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655003872 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 317655003873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 317655003874 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 317655003875 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 317655003876 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 317655003877 mRNA/rRNA interface [nucleotide binding]; other site 317655003878 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 317655003879 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 317655003880 23S rRNA interface [nucleotide binding]; other site 317655003881 L7/L12 interface [polypeptide binding]; other site 317655003882 putative thiostrepton binding site; other site 317655003883 L25 interface [polypeptide binding]; other site 317655003884 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 317655003885 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 317655003886 active site 317655003887 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 317655003888 catalytic triad [active] 317655003889 dimer interface [polypeptide binding]; other site 317655003890 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 317655003891 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 317655003892 putative homodimer interface [polypeptide binding]; other site 317655003893 KOW motif; Region: KOW; cl00354 317655003894 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 317655003895 MFS/sugar transport protein; Region: MFS_2; pfam13347 317655003896 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 317655003897 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655003898 Helix-turn-helix domains; Region: HTH; cl00088 317655003899 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 317655003900 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655003901 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655003902 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 317655003903 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 317655003904 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 317655003905 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 317655003906 Transglycosylase; Region: Transgly; cl07896 317655003907 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 317655003908 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655003909 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003910 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655003911 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 317655003912 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 317655003913 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 317655003914 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 317655003915 dimer interface [polypeptide binding]; other site 317655003916 phosphorylation site [posttranslational modification] 317655003917 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 317655003918 ATP binding site [chemical binding]; other site 317655003919 Mg2+ binding site [ion binding]; other site 317655003920 G-X-G motif; other site 317655003921 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655003922 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 317655003923 active site 317655003924 phosphorylation site [posttranslational modification] 317655003925 intermolecular recognition site; other site 317655003926 dimerization interface [polypeptide binding]; other site 317655003927 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 317655003928 Walker A motif; other site 317655003929 ATP binding site [chemical binding]; other site 317655003930 Walker B motif; other site 317655003931 arginine finger; other site 317655003932 Helix-turn-helix domains; Region: HTH; cl00088 317655003933 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 317655003934 active site 317655003935 dimer interface [polypeptide binding]; other site 317655003936 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655003937 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 317655003938 Uncharacterized membrane protein [Function unknown]; Region: COG3949 317655003939 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 317655003940 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655003941 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655003942 N-terminal plug; other site 317655003943 ligand-binding site [chemical binding]; other site 317655003944 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 317655003945 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 317655003946 active site 317655003947 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655003948 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 317655003949 non-specific DNA binding site [nucleotide binding]; other site 317655003950 salt bridge; other site 317655003951 sequence-specific DNA binding site [nucleotide binding]; other site 317655003952 Cupin domain; Region: Cupin_2; cl09118 317655003953 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 317655003954 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 317655003955 active site 317655003956 putative substrate binding pocket [chemical binding]; other site 317655003957 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 317655003958 phosphoserine phosphatase SerB; Region: serB; TIGR00338 317655003959 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655003960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003961 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 317655003962 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 317655003963 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 317655003964 PYR/PP interface [polypeptide binding]; other site 317655003965 dimer interface [polypeptide binding]; other site 317655003966 TPP binding site [chemical binding]; other site 317655003967 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 317655003968 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 317655003969 TPP-binding site [chemical binding]; other site 317655003970 dimer interface [polypeptide binding]; other site 317655003971 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 317655003972 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 317655003973 putative valine binding site [chemical binding]; other site 317655003974 dimer interface [polypeptide binding]; other site 317655003975 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 317655003976 ketol-acid reductoisomerase; Provisional; Region: PRK05479 317655003977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655003978 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 317655003979 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 317655003980 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 317655003981 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655003982 catalytic residue [active] 317655003983 AAA domain; Region: AAA_26; pfam13500 317655003984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655003985 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 317655003986 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 317655003987 inhibitor-cofactor binding pocket; inhibition site 317655003988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655003989 catalytic residue [active] 317655003990 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 317655003991 SurA N-terminal domain; Region: SurA_N_3; cl07813 317655003992 PPIC-type PPIASE domain; Region: Rotamase; cl08278 317655003993 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 317655003994 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 317655003995 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; cl16911 317655003996 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 protein; Region: CSP_CDS; cd04458 317655003997 DNA-binding site [nucleotide binding]; DNA binding site 317655003998 RNA-binding motif; other site 317655003999 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 317655004000 rRNA binding site [nucleotide binding]; other site 317655004001 predicted 30S ribosome binding site; other site 317655004002 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 317655004003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655004004 YCII-related domain; Region: YCII; cl00999 317655004005 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 317655004006 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 317655004007 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 317655004008 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 317655004009 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 317655004010 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 317655004011 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 317655004012 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 317655004013 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 317655004014 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 317655004015 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 317655004016 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 317655004017 DNA binding site [nucleotide binding] 317655004018 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 317655004019 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; cl04593 317655004020 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 317655004021 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 317655004022 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 317655004023 RPB11 interaction site [polypeptide binding]; other site 317655004024 RPB12 interaction site [polypeptide binding]; other site 317655004025 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 317655004026 RPB3 interaction site [polypeptide binding]; other site 317655004027 RPB1 interaction site [polypeptide binding]; other site 317655004028 RPB11 interaction site [polypeptide binding]; other site 317655004029 RPB10 interaction site [polypeptide binding]; other site 317655004030 enoyl-CoA hydratase; Provisional; Region: PRK05981 317655004031 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 317655004032 substrate binding site [chemical binding]; other site 317655004033 oxyanion hole (OAH) forming residues; other site 317655004034 trimer interface [polypeptide binding]; other site 317655004035 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 317655004036 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 317655004037 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 317655004038 Rrf2 family protein; Region: rrf2_super; TIGR00738 317655004039 Helix-turn-helix domains; Region: HTH; cl00088 317655004040 Helix-turn-helix domains; Region: HTH; cl00088 317655004041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 317655004042 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 317655004043 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 317655004044 hinge; other site 317655004045 active site 317655004046 cytidylate kinase; Provisional; Region: cmk; PRK00023 317655004047 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 317655004048 CMP-binding site; other site 317655004049 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 317655004050 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 317655004051 RNA binding site [nucleotide binding]; other site 317655004052 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 317655004053 RNA binding site [nucleotide binding]; other site 317655004054 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 317655004055 RNA binding site [nucleotide binding]; other site 317655004056 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 317655004057 RNA binding site [nucleotide binding]; other site 317655004058 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 317655004059 RNA binding site [nucleotide binding]; other site 317655004060 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 317655004061 RNA binding site [nucleotide binding]; other site 317655004062 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 317655004063 IHF dimer interface [polypeptide binding]; other site 317655004064 IHF - DNA interface [nucleotide binding]; other site 317655004065 ABC-2 type transporter; Region: ABC2_membrane; cl11417 317655004066 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 317655004067 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 317655004068 Walker A/P-loop; other site 317655004069 ATP binding site [chemical binding]; other site 317655004070 Q-loop/lid; other site 317655004071 ABC transporter signature motif; other site 317655004072 Walker B; other site 317655004073 D-loop; other site 317655004074 H-loop/switch region; other site 317655004075 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655004076 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 317655004077 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 317655004078 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 317655004079 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 317655004080 active site 317655004081 phosphorylation site [posttranslational modification] 317655004082 intermolecular recognition site; other site 317655004083 dimerization interface [polypeptide binding]; other site 317655004084 Helix-turn-helix domains; Region: HTH; cl00088 317655004085 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 317655004086 dimer interface [polypeptide binding]; other site 317655004087 phosphorylation site [posttranslational modification] 317655004088 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 317655004089 ATP binding site [chemical binding]; other site 317655004090 Mg2+ binding site [ion binding]; other site 317655004091 G-X-G motif; other site 317655004092 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 317655004093 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 317655004094 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 317655004095 Subunit I/III interface [polypeptide binding]; other site 317655004096 Subunit III/IV interface [polypeptide binding]; other site 317655004097 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 317655004098 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 317655004099 D-pathway; other site 317655004100 Putative ubiquinol binding site [chemical binding]; other site 317655004101 Low-spin heme (heme b) binding site [chemical binding]; other site 317655004102 Putative water exit pathway; other site 317655004103 Binuclear center (heme o3/CuB) [ion binding]; other site 317655004104 K-pathway; other site 317655004105 Putative proton exit pathway; other site 317655004106 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 317655004107 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655004108 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 317655004109 metabolite-proton symporter; Region: 2A0106; TIGR00883 317655004110 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 317655004111 putative substrate translocation pore; other site 317655004112 benzoate transport; Region: 2A0115; TIGR00895 317655004113 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 317655004114 putative substrate translocation pore; other site 317655004115 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 317655004116 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 317655004117 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 317655004118 potassium uptake protein; Region: kup; TIGR00794 317655004119 K+ potassium transporter; Region: K_trans; cl15781 317655004120 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 317655004121 Cytochrome C biogenesis protein; Region: CcmH; cl01179 317655004122 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 317655004123 catalytic residues [active] 317655004124 central insert; other site 317655004125 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 317655004126 CcmE; Region: CcmE; cl00994 317655004127 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 317655004128 Protein of unknown function (DUF454); Region: DUF454; cl01063 317655004129 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 317655004130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004131 NAD(P) binding pocket [chemical binding]; other site 317655004132 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 317655004133 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655004134 Protein of unknown function (DUF541); Region: SIMPL; cl01077 317655004135 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655004136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004137 Walker A/P-loop; other site 317655004138 ATP binding site [chemical binding]; other site 317655004139 Q-loop/lid; other site 317655004140 ABC transporter signature motif; other site 317655004141 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655004142 Walker B; other site 317655004143 D-loop; other site 317655004144 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 317655004145 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655004146 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 317655004147 active site 317655004148 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 317655004149 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 317655004150 CysD dimerization site [polypeptide binding]; other site 317655004151 G1 box; other site 317655004152 putative GEF interaction site [polypeptide binding]; other site 317655004153 GTP/Mg2+ binding site [chemical binding]; other site 317655004154 Switch I region; other site 317655004155 G2 box; other site 317655004156 G3 box; other site 317655004157 Switch II region; other site 317655004158 G4 box; other site 317655004159 G5 box; other site 317655004160 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 317655004161 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 317655004162 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 important for the assimilation of...; Region: APSK; cd02027 317655004163 ligand-binding site [chemical binding]; other site 317655004164 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 317655004165 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 317655004166 Active Sites [active] 317655004167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655004168 Helix-turn-helix domains; Region: HTH; cl00088 317655004169 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 317655004170 dimerization interface [polypeptide binding]; other site 317655004171 isovaleryl-CoA dehydrogenase; Region: PLN02519 317655004172 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004173 active site 317655004174 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 317655004175 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 317655004176 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 317655004177 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 317655004178 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 317655004179 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655004180 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 317655004181 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 317655004182 carboxyltransferase (CT) interaction site; other site 317655004183 biotinylation site [posttranslational modification]; other site 317655004184 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 317655004185 putative active site [active] 317655004186 putative catalytic site [active] 317655004187 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; cl09155 317655004188 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 317655004189 putative active site [active] 317655004190 catalytic site [active] 317655004191 phospholipase D alpha; Region: PLN02270 317655004192 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 317655004193 putative active site [active] 317655004194 catalytic site [active] 317655004195 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 317655004196 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 317655004197 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 317655004198 FAD binding site [chemical binding]; other site 317655004199 substrate binding site [chemical binding]; other site 317655004200 catalytic residues [active] 317655004201 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 317655004202 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 317655004203 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 317655004204 DNA binding residues [nucleotide binding] 317655004205 putative dimer interface [polypeptide binding]; other site 317655004206 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 317655004207 amidophosphoribosyltransferase; Provisional; Region: PRK09123 317655004208 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 317655004209 active site 317655004210 tetramer interface [polypeptide binding]; other site 317655004211 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655004212 active site 317655004213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004214 NAD(P) binding site [chemical binding]; other site 317655004215 active site 317655004216 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655004217 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 317655004218 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 317655004219 S-adenosylmethionine binding site [chemical binding]; other site 317655004220 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 317655004221 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 317655004222 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 317655004223 TPP-binding site [chemical binding]; other site 317655004224 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 317655004225 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 317655004226 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 317655004227 dimer interface [polypeptide binding]; other site 317655004228 PYR/PP interface [polypeptide binding]; other site 317655004229 TPP binding site [chemical binding]; other site 317655004230 substrate binding site [chemical binding]; other site 317655004231 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; cl12031 317655004232 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 317655004233 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; cl12031 317655004234 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 317655004235 putative active site [active] 317655004236 Ap4A binding site [chemical binding]; other site 317655004237 nudix motif; other site 317655004238 putative metal binding site [ion binding]; other site 317655004239 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 317655004240 Fe-S cluster binding site [ion binding]; other site 317655004241 DNA binding site [nucleotide binding] 317655004242 active site 317655004243 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 317655004244 catalytic center binding site [active] 317655004245 ATP binding site [chemical binding]; other site 317655004246 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655004247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004248 NAD(P) binding site [chemical binding]; other site 317655004249 active site 317655004250 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 317655004251 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655004252 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 317655004253 Protein of unknown function (DUF692); Region: DUF692; cl01263 317655004254 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 317655004255 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 317655004256 UDP-glucose 4-epimerase; Region: PLN02240 317655004257 NAD binding site [chemical binding]; other site 317655004258 homodimer interface [polypeptide binding]; other site 317655004259 active site 317655004260 substrate binding site [chemical binding]; other site 317655004261 Predicted membrane protein [Function unknown]; Region: COG2119 317655004262 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 317655004263 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 317655004264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 317655004265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 317655004266 Family of unknown function (DUF490); Region: DUF490; pfam04357 317655004267 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 317655004268 Surface antigen; Region: Bac_surface_Ag; cl03097 317655004269 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 317655004270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004271 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 317655004272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004273 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 317655004274 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 317655004275 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 317655004276 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 317655004277 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655004278 NAD binding site [chemical binding]; other site 317655004279 putative substrate binding site 2 [chemical binding]; other site 317655004280 putative substrate binding site 1 [chemical binding]; other site 317655004281 active site 317655004282 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 317655004283 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 317655004284 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 317655004285 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 317655004286 active site 317655004287 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655004288 MatE; Region: MatE; cl10513 317655004289 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 317655004290 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 317655004291 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 317655004292 inhibitor-cofactor binding pocket; inhibition site 317655004293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655004294 catalytic residue [active] 317655004295 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 317655004296 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 317655004297 putative trimer interface [polypeptide binding]; other site 317655004298 putative CoA binding site [chemical binding]; other site 317655004299 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 317655004300 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 317655004301 active site 317655004302 homodimer interface [polypeptide binding]; other site 317655004303 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 317655004304 NeuB family; Region: NeuB; cl00496 317655004305 SAF domain; Region: SAF; cl00555 317655004306 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655004307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004308 NAD(P) binding site [chemical binding]; other site 317655004309 active site 317655004310 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 317655004311 ligand binding site; other site 317655004312 tetramer interface; other site 317655004313 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 317655004314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004315 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 317655004316 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 317655004317 NeuB family; Region: NeuB; cl00496 317655004318 SAF domain; Region: SAF; cl00555 317655004319 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 317655004320 Metal-binding active site; metal-binding site 317655004321 AP (apurinic/apyrimidinic) site pocket; other site 317655004322 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 317655004323 ligand binding site; other site 317655004324 tetramer interface; other site 317655004325 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 317655004326 Chain length determinant protein; Region: Wzz; cl15801 317655004327 Chain length determinant protein; Region: Wzz; cl15801 317655004328 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 317655004329 Nucleotide binding site [chemical binding]; other site 317655004330 O-Antigen ligase; Region: Wzy_C; cl04850 317655004331 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 317655004332 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 317655004333 NAD(P) binding site [chemical binding]; other site 317655004334 homodimer interface [polypeptide binding]; other site 317655004335 substrate binding site [chemical binding]; other site 317655004336 active site 317655004337 Bacterial sugar transferase; Region: Bac_transf; cl00939 317655004338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004339 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655004340 NAD(P) binding site [chemical binding]; other site 317655004341 active site 317655004342 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 317655004343 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 317655004344 SLBB domain; Region: SLBB; pfam10531 317655004345 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 317655004346 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 317655004347 active site 317655004348 metal binding site [ion binding]; metal-binding site 317655004349 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 317655004350 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 317655004351 active site 317655004352 homodimer interface [polypeptide binding]; other site 317655004353 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 317655004354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004355 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 317655004356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655004357 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 317655004358 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 317655004359 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 317655004360 Substrate binding site; other site 317655004361 Cupin domain; Region: Cupin_2; cl09118 317655004362 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 317655004363 active site 317655004364 HslU subunit interaction site [polypeptide binding]; other site 317655004365 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 317655004366 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 317655004367 Walker A motif; other site 317655004368 ATP binding site [chemical binding]; other site 317655004369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004370 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 317655004371 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655004372 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 317655004373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 317655004374 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 317655004375 FtsH Extracellular; Region: FtsH_ext; pfam06480 317655004376 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 317655004377 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 317655004378 Walker A motif; other site 317655004379 ATP binding site [chemical binding]; other site 317655004380 Walker B motif; other site 317655004381 arginine finger; other site 317655004382 Peptidase family M41; Region: Peptidase_M41; pfam01434 317655004383 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 317655004384 hypothetical protein; Provisional; Region: yieM; PRK10997 317655004385 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 317655004386 PLD-like domain; Region: PLDc_2; pfam13091 317655004387 putative active site [active] 317655004388 catalytic site [active] 317655004389 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 317655004390 PLD-like domain; Region: PLDc_2; pfam13091 317655004391 putative active site [active] 317655004392 catalytic site [active] 317655004393 Methyltransferase domain; Region: Methyltransf_31; pfam13847 317655004394 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 317655004395 S-adenosylmethionine binding site [chemical binding]; other site 317655004396 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 317655004397 putative substrate translocation pore; other site 317655004398 Major Facilitator Superfamily; Region: MFS_1; pfam07690 317655004399 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 317655004400 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 317655004401 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 317655004402 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 317655004403 Walker A motif; other site 317655004404 ATP binding site [chemical binding]; other site 317655004405 Walker B motif; other site 317655004406 arginine finger; other site 317655004407 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 317655004408 Walker A motif; other site 317655004409 ATP binding site [chemical binding]; other site 317655004410 Walker B motif; other site 317655004411 arginine finger; other site 317655004412 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 317655004413 Helix-turn-helix domains; Region: HTH; cl00088 317655004414 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 317655004415 dimerization interface [polypeptide binding]; other site 317655004416 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 317655004417 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; cl00197 317655004418 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; cl00197 317655004419 pyruvate phosphate dikinase; Provisional; Region: PRK09279 317655004420 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 317655004421 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 317655004422 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; cl09155 317655004423 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 317655004424 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 317655004425 dimer interface [polypeptide binding]; other site 317655004426 motif 1; other site 317655004427 active site 317655004428 motif 2; other site 317655004429 motif 3; other site 317655004430 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 317655004431 non-specific DNA binding site [nucleotide binding]; other site 317655004432 salt bridge; other site 317655004433 sequence-specific DNA binding site [nucleotide binding]; other site 317655004434 TraB family; Region: TraB; cl12050 317655004435 TraB family; Region: TraB; cl12050 317655004436 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 317655004437 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 317655004438 5S rRNA interface [nucleotide binding]; other site 317655004439 CTC domain interface [polypeptide binding]; other site 317655004440 L16 interface [polypeptide binding]; other site 317655004441 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 317655004442 putative active site [active] 317655004443 catalytic residue [active] 317655004444 short chain dehydrogenase; Provisional; Region: PRK06914 317655004445 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 317655004446 NADP binding site [chemical binding]; other site 317655004447 active site 317655004448 steroid binding site; other site 317655004449 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 317655004450 GTP-binding protein YchF; Reviewed; Region: PRK09601 317655004451 YchF GTPase; Region: YchF; cd01900 317655004452 G1 box; other site 317655004453 GTP/Mg2+ binding site [chemical binding]; other site 317655004454 Switch I region; other site 317655004455 G2 box; other site 317655004456 Switch II region; other site 317655004457 G3 box; other site 317655004458 G4 box; other site 317655004459 G5 box; other site 317655004460 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 317655004461 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 317655004462 GIY-YIG motif/motif A; other site 317655004463 active site 317655004464 catalytic site [active] 317655004465 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 317655004466 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 317655004467 DNA binding residues [nucleotide binding] 317655004468 dimer interface [polypeptide binding]; other site 317655004469 mercury binding site [ion binding]; other site 317655004470 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655004471 PhoD-like phosphatase; Region: PhoD; pfam09423 317655004472 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 317655004473 putative active site [active] 317655004474 putative metal binding site [ion binding]; other site 317655004475 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 317655004476 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 317655004477 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 317655004478 ATP binding site [chemical binding]; other site 317655004479 Mg2+ binding site [ion binding]; other site 317655004480 G-X-G motif; other site 317655004481 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 317655004482 ATP binding site [chemical binding]; other site 317655004483 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 317655004484 rod shape-determining protein MreB; Provisional; Region: PRK13927 317655004485 Cell division protein FtsA; Region: FtsA; cl11496 317655004486 rod shape-determining protein MreC; Region: MreC; pfam04085 317655004487 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 317655004488 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 317655004489 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655004490 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 317655004491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655004492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004493 active site 317655004494 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 317655004495 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004496 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 317655004497 substrate binding site [chemical binding]; other site 317655004498 oxyanion hole (OAH) forming residues; other site 317655004499 trimer interface [polypeptide binding]; other site 317655004500 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655004501 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 317655004502 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004503 active site 317655004504 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655004505 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004506 active site 317655004507 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 317655004508 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 317655004509 dimer interface [polypeptide binding]; other site 317655004510 active site 317655004511 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 317655004512 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 317655004513 FMN binding site [chemical binding]; other site 317655004514 substrate binding site [chemical binding]; other site 317655004515 putative catalytic residue [active] 317655004516 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 317655004517 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 317655004518 Walker A motif; other site 317655004519 ATP binding site [chemical binding]; other site 317655004520 Walker B motif; other site 317655004521 arginine finger; other site 317655004522 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655004523 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 317655004524 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 317655004525 dimer interface [polypeptide binding]; other site 317655004526 putative CheW interface [polypeptide binding]; other site 317655004527 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 317655004528 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 317655004529 Protein of unknown function (DUF817); Region: DUF817; cl01520 317655004530 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 317655004531 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 317655004532 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 317655004533 active site 317655004534 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 317655004535 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 317655004536 putative heme binding site [chemical binding]; other site 317655004537 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 317655004538 GIY-YIG motif/motif A; other site 317655004539 putative active site [active] 317655004540 putative metal binding site [ion binding]; other site 317655004541 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 317655004542 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 317655004543 active site 317655004544 HIGH motif; other site 317655004545 dimer interface [polypeptide binding]; other site 317655004546 KMSKS motif; other site 317655004547 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 317655004548 RNA binding surface [nucleotide binding]; other site 317655004549 PilZ domain; Region: PilZ; cl01260 317655004550 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 317655004551 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 317655004552 generic binding surface II; other site 317655004553 ssDNA binding site; other site 317655004554 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 317655004555 ATP binding site [chemical binding]; other site 317655004556 putative Mg++ binding site [ion binding]; other site 317655004557 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 317655004558 nucleotide binding region [chemical binding]; other site 317655004559 ATP-binding site [chemical binding]; other site 317655004560 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 317655004561 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 317655004562 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 317655004563 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 317655004564 ATP binding site [chemical binding]; other site 317655004565 putative Mg++ binding site [ion binding]; other site 317655004566 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 317655004567 nucleotide binding region [chemical binding]; other site 317655004568 ATP-binding site [chemical binding]; other site 317655004569 TRCF domain; Region: TRCF; cl04088 317655004570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655004571 metal binding site [ion binding]; metal-binding site 317655004572 active site 317655004573 I-site; other site 317655004574 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 317655004575 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 317655004576 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 317655004577 FeS/SAM binding site; other site 317655004578 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 317655004579 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 317655004580 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 317655004581 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 317655004582 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655004583 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 317655004584 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 317655004585 active site 317655004586 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 317655004587 dimer interface [polypeptide binding]; other site 317655004588 non-prolyl cis peptide bond; other site 317655004589 insertion regions; other site 317655004590 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 317655004591 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 317655004592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 317655004593 active site 317655004594 catalytic tetrad [active] 317655004595 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655004596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655004597 DNA binding site [nucleotide binding] 317655004598 domain linker motif; other site 317655004599 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 317655004600 putative ligand binding site [chemical binding]; other site 317655004601 putative dimerization interface [polypeptide binding]; other site 317655004602 alpha-glucosidase; Provisional; Region: PRK10426 317655004603 Iron/zinc purple acid phosphatase-like protein C; Region: Metallophos_C; pfam14008 317655004604 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 317655004605 putative active site [active] 317655004606 putative catalytic site [active] 317655004607 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655004608 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655004609 N-terminal plug; other site 317655004610 ligand-binding site [chemical binding]; other site 317655004611 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 317655004612 D-galactonate transporter; Region: 2A0114; TIGR00893 317655004613 putative substrate translocation pore; other site 317655004614 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 317655004615 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 317655004616 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 317655004617 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 317655004618 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 317655004619 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655004620 FixH; Region: FixH; cl01254 317655004621 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 317655004622 4Fe-4S binding domain; Region: Fer4_5; pfam12801 317655004623 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 317655004624 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 317655004625 Cytochrome c; Region: Cytochrom_C; cl11414 317655004626 Cytochrome c; Region: Cytochrom_C; cl11414 317655004627 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 317655004628 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 317655004629 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 317655004630 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 317655004631 Low-spin heme binding site [chemical binding]; other site 317655004632 Putative water exit pathway; other site 317655004633 Binuclear center (active site) [active] 317655004634 Putative proton exit pathway; other site 317655004635 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 317655004636 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 317655004637 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 317655004638 ligand binding site [chemical binding]; other site 317655004639 flexible hinge region; other site 317655004640 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 317655004641 putative switch regulator; other site 317655004642 non-specific DNA interactions [nucleotide binding]; other site 317655004643 DNA binding site [nucleotide binding] 317655004644 sequence specific DNA binding site [nucleotide binding]; other site 317655004645 putative cAMP binding site [chemical binding]; other site 317655004646 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 317655004647 Ligand Binding Site [chemical binding]; other site 317655004648 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 317655004649 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 317655004650 Radical SAM superfamily; Region: Radical_SAM; pfam04055 317655004651 FeS/SAM binding site; other site 317655004652 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 317655004653 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 317655004654 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 317655004655 B12 binding site [chemical binding]; other site 317655004656 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 317655004657 FeS/SAM binding site; other site 317655004658 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 317655004659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655004660 DNA-binding site [nucleotide binding]; DNA binding site 317655004661 UTRA domain; Region: UTRA; cl01230 317655004662 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 317655004663 Metallo-dependent hydrolases, subgroup D 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_E; cd01313 317655004664 active site 317655004665 imidazolonepropionase; Validated; Region: PRK09356 317655004666 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 317655004667 active site 317655004668 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 317655004669 active sites [active] 317655004670 tetramer interface [polypeptide binding]; other site 317655004671 N-formylglutamate amidohydrolase; Region: FGase; cl01522 317655004672 urocanate hydratase; Provisional; Region: PRK05414 317655004673 urocanate hydratase; Region: hutU; TIGR01228 317655004674 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655004675 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 317655004676 active site 317655004677 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 317655004678 Uncharacterized conserved protein [Function unknown]; Region: COG3777 317655004679 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 317655004680 active site 2 [active] 317655004681 active site 1 [active] 317655004682 MASE1; Region: MASE1; pfam05231 317655004683 putative diguanylate cyclase; Provisional; Region: PRK09776 317655004684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655004685 metal binding site [ion binding]; metal-binding site 317655004686 active site 317655004687 I-site; other site 317655004688 Helix-turn-helix domains; Region: HTH; cl00088 317655004689 WHG domain; Region: WHG; pfam13305 317655004690 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 317655004691 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 317655004692 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 317655004693 L11 interface [polypeptide binding]; other site 317655004694 putative EF-Tu interaction site [polypeptide binding]; other site 317655004695 putative EF-G interaction site [polypeptide binding]; other site 317655004696 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 317655004697 23S rRNA interface [nucleotide binding]; other site 317655004698 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 317655004699 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 317655004700 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 317655004701 amino acid transporter; Region: 2A0306; TIGR00909 317655004702 Spore germination protein; Region: Spore_permease; cl15802 317655004703 Spore germination protein; Region: Spore_permease; cl15802 317655004704 GTPase CgtA; Reviewed; Region: obgE; PRK12299 317655004705 GTP1/OBG; Region: GTP1_OBG; pfam01018 317655004706 Obg GTPase; Region: Obg; cd01898 317655004707 G1 box; other site 317655004708 GTP/Mg2+ binding site [chemical binding]; other site 317655004709 Switch I region; other site 317655004710 G2 box; other site 317655004711 G3 box; other site 317655004712 Switch II region; other site 317655004713 G4 box; other site 317655004714 G5 box; other site 317655004715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 317655004716 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 317655004717 S-adenosylmethionine binding site [chemical binding]; other site 317655004718 recombination protein F; Reviewed; Region: recF; PRK00064 317655004719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004720 Walker A/P-loop; other site 317655004721 ATP binding site [chemical binding]; other site 317655004722 Q-loop/lid; other site 317655004723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004724 ABC transporter signature motif; other site 317655004725 Walker B; other site 317655004726 D-loop; other site 317655004727 H-loop/switch region; other site 317655004728 PspC domain; Region: PspC; cl00864 317655004729 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 317655004730 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 317655004731 NADP binding site [chemical binding]; other site 317655004732 dimer interface [polypeptide binding]; other site 317655004733 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655004734 thiamine-monophosphate kinase; Region: thiL; TIGR01379 317655004735 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 317655004736 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 317655004737 Protein export membrane protein; Region: SecD_SecF; cl14618 317655004738 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 317655004739 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 317655004740 Protein export membrane protein; Region: SecD_SecF; cl14618 317655004741 Preprotein translocase subunit; Region: YajC; cl00806 317655004742 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 317655004743 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 317655004744 NAD(P) binding site [chemical binding]; other site 317655004745 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 317655004746 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 317655004747 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 317655004748 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 317655004749 putative hydrophobic ligand binding site [chemical binding]; other site 317655004750 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 317655004751 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 formation of...; Region: AlaRS_core; cd00673 317655004752 motif 1; other site 317655004753 active site 317655004754 motif 2; other site 317655004755 motif 3; other site 317655004756 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 317655004757 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655004758 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 317655004759 putative C-terminal domain interface [polypeptide binding]; other site 317655004760 putative GSH binding site (G-site) [chemical binding]; other site 317655004761 putative dimer interface [polypeptide binding]; other site 317655004762 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 317655004763 N-terminal domain interface [polypeptide binding]; other site 317655004764 dimer interface [polypeptide binding]; other site 317655004765 substrate binding pocket (H-site) [chemical binding]; other site 317655004766 Arginase family; Region: Arginase; cl00306 317655004767 recombinase A; Provisional; Region: recA; PRK09354 317655004768 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 317655004769 hexamer interface [polypeptide binding]; other site 317655004770 Walker A motif; other site 317655004771 ATP binding site [chemical binding]; other site 317655004772 Walker B motif; other site 317655004773 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655004774 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; cl09944 317655004775 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 317655004776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655004777 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 317655004778 dimer interface [polypeptide binding]; other site 317655004779 phosphorylation site [posttranslational modification] 317655004780 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 317655004781 ATP binding site [chemical binding]; other site 317655004782 Mg2+ binding site [ion binding]; other site 317655004783 G-X-G motif; other site 317655004784 Response regulator receiver domain; Region: Response_reg; pfam00072 317655004785 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 317655004786 active site 317655004787 phosphorylation site [posttranslational modification] 317655004788 intermolecular recognition site; other site 317655004789 dimerization interface [polypeptide binding]; other site 317655004790 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 317655004791 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 317655004792 active site 317655004793 Zn binding site [ion binding]; other site 317655004794 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 317655004795 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 317655004796 SmpB-tmRNA interface; other site 317655004797 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 317655004798 dihydrodipicolinate synthase; Region: dapA; TIGR00674 317655004799 dimer interface [polypeptide binding]; other site 317655004800 active site 317655004801 catalytic residue [active] 317655004802 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 317655004803 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 catalyze...; Region: LT_GEWL; cd00254 317655004804 N-acetyl-D-glucosamine binding site [chemical binding]; other site 317655004805 catalytic residue [active] 317655004806 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 317655004807 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 317655004808 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 317655004809 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 317655004810 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 317655004811 Sel1 repeat; Region: Sel1; cl02723 317655004812 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 317655004813 amidase catalytic site [active] 317655004814 Zn binding residues [ion binding]; other site 317655004815 substrate binding site [chemical binding]; other site 317655004816 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 317655004817 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; cl16911 317655004818 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 317655004819 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 317655004820 active site 317655004821 phosphorylation site [posttranslational modification] 317655004822 intermolecular recognition site; other site 317655004823 dimerization interface [polypeptide binding]; other site 317655004824 CheB methylesterase; Region: CheB_methylest; pfam01339 317655004825 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 317655004826 Response regulator receiver domain; Region: Response_reg; pfam00072 317655004827 active site 317655004828 phosphorylation site [posttranslational modification] 317655004829 intermolecular recognition site; other site 317655004830 dimerization interface [polypeptide binding]; other site 317655004831 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 317655004832 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 317655004833 putative binding surface; other site 317655004834 active site 317655004835 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 317655004836 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 317655004837 ATP binding site [chemical binding]; other site 317655004838 Mg2+ binding site [ion binding]; other site 317655004839 G-X-G motif; other site 317655004840 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 317655004841 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 317655004842 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 317655004843 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 317655004844 RNA binding surface [nucleotide binding]; other site 317655004845 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 317655004846 active site 317655004847 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 317655004848 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 317655004849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655004850 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 317655004851 DNA binding residues [nucleotide binding] 317655004852 LytTr DNA-binding domain; Region: LytTR; cl04498 317655004853 Peptidase family M23; Region: Peptidase_M23; pfam01551 317655004854 Transglycosylase; Region: Transgly; cl07896 317655004855 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 317655004856 HSP70 interaction site [polypeptide binding]; other site 317655004857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004858 active site 317655004859 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; cl12031 317655004860 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655004861 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 317655004862 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 317655004863 dimer interface [polypeptide binding]; other site 317655004864 anticodon binding site; other site 317655004865 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 the...; Region: AspRS_core; cd00777 317655004866 homodimer interface [polypeptide binding]; other site 317655004867 motif 1; other site 317655004868 active site 317655004869 motif 2; other site 317655004870 GAD domain; Region: GAD; pfam02938 317655004871 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 attaches...; Region: class_II_aaRS-like_core; cl00268 317655004872 active site 317655004873 motif 3; other site 317655004874 ribonuclease D; Region: rnd; TIGR01388 317655004875 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 317655004876 catalytic site [active] 317655004877 putative active site [active] 317655004878 putative substrate binding site [chemical binding]; other site 317655004879 HRDC domain; Region: HRDC; cl02578 317655004880 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 317655004881 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 317655004882 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 317655004883 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 317655004884 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 317655004885 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 317655004886 putative domain interface [polypeptide binding]; other site 317655004887 putative active site [active] 317655004888 catalytic site [active] 317655004889 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 317655004890 putative domain interface [polypeptide binding]; other site 317655004891 putative active site [active] 317655004892 catalytic site [active] 317655004893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655004894 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 317655004895 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 317655004896 dimerization interface [polypeptide binding]; other site 317655004897 putative ATP binding site [chemical binding]; other site 317655004898 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 317655004899 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 317655004900 active site 317655004901 substrate binding site [chemical binding]; other site 317655004902 cosubstrate binding site; other site 317655004903 catalytic site [active] 317655004904 Protein of unknown function (DUF419); Region: DUF419; cl15265 317655004905 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 317655004906 active site 317655004907 multimer interface [polypeptide binding]; other site 317655004908 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 317655004909 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 317655004910 interface (dimer of trimers) [polypeptide binding]; other site 317655004911 Substrate-binding/catalytic site; other site 317655004912 Zn-binding sites [ion binding]; other site 317655004913 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 317655004914 OstA-like protein; Region: OstA; cl00844 317655004915 Organic solvent tolerance protein; Region: OstA_C; pfam04453 317655004916 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 317655004917 AMP-binding enzyme; Region: AMP-binding; cl15778 317655004918 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655004919 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 317655004920 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 317655004921 active site 317655004922 substrate binding site [chemical binding]; other site 317655004923 ATP binding site [chemical binding]; other site 317655004924 Winged helix-turn helix; Region: HTH_29; pfam13551 317655004925 Integrase core domain; Region: rve; cl01316 317655004926 Integrase core domain; Region: rve_3; cl15866 317655004927 Helix-turn-helix domains; Region: HTH; cl00088 317655004928 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 317655004929 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 317655004930 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 317655004931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655004932 active site 317655004933 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 317655004934 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 317655004935 CHASE2 domain; Region: CHASE2; cl01732 317655004936 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 317655004937 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 317655004938 Class I ribonucleotide reductase; Region: RNR_I; cd01679 317655004939 active site 317655004940 dimer interface [polypeptide binding]; other site 317655004941 catalytic residues [active] 317655004942 effector binding site; other site 317655004943 R2 peptide binding site; other site 317655004944 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 317655004945 putative active site [active] 317655004946 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 317655004947 dimer interface [polypeptide binding]; other site 317655004948 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 317655004949 putative radical transfer pathway; other site 317655004950 diiron center [ion binding]; other site 317655004951 tyrosyl radical; other site 317655004952 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 317655004953 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 317655004954 Winged helix-turn helix; Region: HTH_29; pfam13551 317655004955 Integrase core domain; Region: rve; cl01316 317655004956 Integrase core domain; Region: rve_3; cl15866 317655004957 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 317655004958 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 317655004959 hypothetical protein; Provisional; Region: PRK09272 317655004960 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 317655004961 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 317655004962 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655004963 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 317655004964 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 317655004965 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 317655004966 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 317655004967 GSH binding site [chemical binding]; other site 317655004968 catalytic residues [active] 317655004969 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 317655004970 active site 317655004971 8-oxo-dGMP binding site [chemical binding]; other site 317655004972 nudix motif; other site 317655004973 metal binding site [ion binding]; metal-binding site 317655004974 Flp/Fap pilin component; Region: Flp_Fap; cl01585 317655004975 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 317655004976 Peptidase family M48; Region: Peptidase_M48; cl12018 317655004977 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 317655004978 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 317655004979 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 317655004980 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 317655004981 active site 317655004982 DNA binding site [nucleotide binding] 317655004983 Int/Topo IB signature motif; other site 317655004984 shikimate kinase; Provisional; Region: PRK13946 317655004985 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 317655004986 ADP binding site [chemical binding]; other site 317655004987 magnesium binding site [ion binding]; other site 317655004988 putative shikimate binding site; other site 317655004989 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 317655004990 active site 317655004991 dimer interface [polypeptide binding]; other site 317655004992 metal binding site [ion binding]; metal-binding site 317655004993 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 317655004994 putative hydrophobic ligand binding site [chemical binding]; other site 317655004995 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 317655004996 dimerization interface [polypeptide binding]; other site 317655004997 putative DNA binding site [nucleotide binding]; other site 317655004998 putative Zn2+ binding site [ion binding]; other site 317655004999 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 317655005000 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 317655005001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005002 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 317655005003 trimerization site [polypeptide binding]; other site 317655005004 active site 317655005005 DNA repair protein RadA; Provisional; Region: PRK11823 317655005006 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 317655005007 Walker A motif/ATP binding site; other site 317655005008 ATP binding site [chemical binding]; other site 317655005009 Walker B motif; other site 317655005010 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 317655005011 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 317655005012 active site 317655005013 intersubunit interactions; other site 317655005014 catalytic residue [active] 317655005015 enoyl-CoA hydratase; Provisional; Region: PRK08252 317655005016 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 317655005017 substrate binding site [chemical binding]; other site 317655005018 oxyanion hole (OAH) forming residues; other site 317655005019 trimer interface [polypeptide binding]; other site 317655005020 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 317655005021 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 317655005022 active site 317655005023 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655005024 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 317655005025 tetrameric interface [polypeptide binding]; other site 317655005026 NAD binding site [chemical binding]; other site 317655005027 catalytic residues [active] 317655005028 acetyl-CoA synthetase; Provisional; Region: PRK00174 317655005029 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 317655005030 AMP-binding enzyme; Region: AMP-binding; cl15778 317655005031 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655005032 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 317655005033 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 317655005034 active site 317655005035 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 317655005036 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 317655005037 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 317655005038 Uncharacterized conserved protein [Function unknown]; Region: COG2308 317655005039 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 317655005040 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 317655005041 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 317655005042 hypothetical protein; Provisional; Region: PRK02250 317655005043 SEC-C motif; Region: SEC-C; pfam02810 317655005044 short chain dehydrogenase; Provisional; Region: PRK07825 317655005045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005046 NAD(P) binding site [chemical binding]; other site 317655005047 active site 317655005048 CcmB protein; Region: CcmB; cl01016 317655005049 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 317655005050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005051 Walker A/P-loop; other site 317655005052 ATP binding site [chemical binding]; other site 317655005053 ABC transporter signature motif; other site 317655005054 Walker B; other site 317655005055 D-loop; other site 317655005056 H-loop/switch region; other site 317655005057 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 317655005058 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 317655005059 aromatic arch; other site 317655005060 DCoH dimer interaction site [polypeptide binding]; other site 317655005061 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 317655005062 DCoH tetramer interaction site [polypeptide binding]; other site 317655005063 substrate binding site [chemical binding]; other site 317655005064 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655005065 ArsC family; Region: ArsC; pfam03960 317655005066 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 317655005067 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 317655005068 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 317655005069 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 317655005070 transcriptional regulator NarP; Provisional; Region: PRK10403 317655005071 HI0933-like protein; Region: HI0933_like; pfam03486 317655005072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005073 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 317655005074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005075 ATP binding site [chemical binding]; other site 317655005076 putative Mg++ binding site [ion binding]; other site 317655005077 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 317655005078 nucleotide binding region [chemical binding]; other site 317655005079 ATP-binding site [chemical binding]; other site 317655005080 DbpA RNA binding domain; Region: DbpA; pfam03880 317655005081 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 317655005082 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 317655005083 NADP binding site [chemical binding]; other site 317655005084 dimer interface [polypeptide binding]; other site 317655005085 Predicted esterase [General function prediction only]; Region: COG0627 317655005086 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; cl12031 317655005087 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 317655005088 putative deacylase active site [active] 317655005089 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 317655005090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655005091 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 317655005092 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 317655005093 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 317655005094 putative active site [active] 317655005095 putative substrate binding site [chemical binding]; other site 317655005096 putative cosubstrate binding site; other site 317655005097 catalytic site [active] 317655005098 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 317655005099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655005100 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 317655005101 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 317655005102 substrate binding site [chemical binding]; other site 317655005103 catalytic Zn binding site [ion binding]; other site 317655005104 NAD binding site [chemical binding]; other site 317655005105 structural Zn binding site [ion binding]; other site 317655005106 dimer interface [polypeptide binding]; other site 317655005107 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 317655005108 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005109 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 317655005110 active site 317655005111 threonine dehydratase; Provisional; Region: PRK07334 317655005112 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 317655005113 tetramer interface [polypeptide binding]; other site 317655005114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655005115 catalytic residue [active] 317655005116 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 317655005117 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 317655005118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005119 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 317655005120 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 317655005121 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 317655005122 active site 317655005123 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 317655005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005125 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 317655005126 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; cl09108 317655005127 phosphate binding site [ion binding]; other site 317655005128 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 317655005129 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 317655005130 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 317655005131 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 317655005132 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 317655005133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655005134 Coenzyme A binding pocket [chemical binding]; other site 317655005135 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655005136 OpgC protein; Region: OpgC_C; cl00792 317655005137 Acyltransferase family; Region: Acyl_transf_3; pfam01757 317655005138 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 317655005139 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 317655005140 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 317655005141 classical (c) SDRs; Region: SDR_c; cd05233 317655005142 NAD(P) binding site [chemical binding]; other site 317655005143 active site 317655005144 EamA-like transporter family; Region: EamA; cl01037 317655005145 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655005146 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 317655005147 Helix-turn-helix domains; Region: HTH; cl00088 317655005148 Helix-turn-helix domains; Region: HTH; cl00088 317655005149 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655005150 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 317655005151 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 317655005152 active site 317655005153 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 317655005154 Phosphotransferase enzyme family; Region: APH; pfam01636 317655005155 putative active site [active] 317655005156 putative substrate binding site [chemical binding]; other site 317655005157 ATP binding site [chemical binding]; other site 317655005158 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655005159 threonine and homoserine efflux system; Provisional; Region: PRK10532 317655005160 EamA-like transporter family; Region: EamA; cl01037 317655005161 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655005162 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 317655005163 putative C-terminal domain interface [polypeptide binding]; other site 317655005164 putative GSH binding site (G-site) [chemical binding]; other site 317655005165 putative dimer interface [polypeptide binding]; other site 317655005166 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 317655005167 N-terminal domain interface [polypeptide binding]; other site 317655005168 dimer interface [polypeptide binding]; other site 317655005169 substrate binding pocket (H-site) [chemical binding]; other site 317655005170 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 317655005171 AMP-binding enzyme; Region: AMP-binding; cl15778 317655005172 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655005173 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; cl16911 317655005174 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 317655005175 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 317655005176 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655005177 catalytic residue [active] 317655005178 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 317655005179 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 317655005180 tetramer interface [polypeptide binding]; other site 317655005181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655005182 catalytic residue [active] 317655005183 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 317655005184 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 317655005185 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 317655005186 lipoyl attachment site [posttranslational modification]; other site 317655005187 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 317655005188 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 317655005189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005190 NAD(P) binding site [chemical binding]; other site 317655005191 active site 317655005192 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 317655005193 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 317655005194 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 317655005195 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 317655005196 binding surface 317655005197 TPR motif; other site 317655005198 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 317655005199 Sporulation related domain; Region: SPOR; cl10051 317655005200 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 317655005201 nucleotide binding site [chemical binding]; other site 317655005202 SulA interaction site; other site 317655005203 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 317655005204 Cell division protein FtsA; Region: FtsA; cl11496 317655005205 Cell division protein FtsA; Region: FtsA; cl11496 317655005206 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 317655005207 Cell division protein FtsQ; Region: FtsQ; pfam03799 317655005208 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 317655005209 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 317655005210 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655005211 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 317655005212 FAD binding domain; Region: FAD_binding_4; pfam01565 317655005213 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 317655005214 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 317655005215 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 317655005216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 317655005217 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 317655005218 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 317655005219 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 317655005220 active site 317655005221 homodimer interface [polypeptide binding]; other site 317655005222 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 317655005223 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 317655005224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 317655005225 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 317655005226 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 317655005227 Mg++ binding site [ion binding]; other site 317655005228 putative catalytic motif [active] 317655005229 putative substrate binding site [chemical binding]; other site 317655005230 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 317655005231 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 317655005232 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 317655005233 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 317655005234 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 317655005235 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 317655005236 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 317655005237 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 317655005238 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 317655005239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655005240 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; cl16911 317655005241 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 317655005242 cell division protein MraZ; Reviewed; Region: PRK00326 317655005243 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 317655005244 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 317655005245 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 317655005246 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 317655005247 dimer interface [polypeptide binding]; other site 317655005248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655005249 catalytic residue [active] 317655005250 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655005251 N-terminal plug; other site 317655005252 ligand-binding site [chemical binding]; other site 317655005253 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655005254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005255 NAD(P) binding site [chemical binding]; other site 317655005256 active site 317655005257 Acyl transferase domain; Region: Acyl_transf_1; cl08282 317655005258 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 317655005259 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 317655005260 dimer interface [polypeptide binding]; other site 317655005261 catalytic triad [active] 317655005262 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 317655005263 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 317655005264 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 317655005265 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 317655005266 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 317655005267 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 317655005268 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 317655005269 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 317655005270 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 317655005271 Helix-turn-helix domains; Region: HTH; cl00088 317655005272 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 317655005273 dimerization interface [polypeptide binding]; other site 317655005274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655005275 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 317655005276 Sel1 repeat; Region: Sel1; cl02723 317655005277 Sporulation related domain; Region: SPOR; cl10051 317655005278 ParA-like protein; Provisional; Region: PHA02518 317655005279 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 317655005280 P-loop; other site 317655005281 Magnesium ion binding site [ion binding]; other site 317655005282 Sporulation related domain; Region: SPOR; cl10051 317655005283 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655005284 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 317655005285 homodecamer interface [polypeptide binding]; other site 317655005286 GTP cyclohydrolase I; Provisional; Region: PLN03044 317655005287 active site 317655005288 putative catalytic site residues [active] 317655005289 zinc binding site [ion binding]; other site 317655005290 GTP-CH-I/GFRP interaction surface; other site 317655005291 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655005292 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655005293 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655005294 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655005295 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655005296 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655005297 Maf-like protein; Region: Maf; pfam02545 317655005298 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 317655005299 active site 317655005300 dimer interface [polypeptide binding]; other site 317655005301 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 317655005302 rRNA binding site [nucleotide binding]; other site 317655005303 predicted 30S ribosome binding site; other site 317655005304 JmjC domain, hydroxylase; Region: JmjC; cl15814 317655005305 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 317655005306 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005307 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 317655005308 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 317655005309 active site 317655005310 dimer interface [polypeptide binding]; other site 317655005311 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 317655005312 Ligand Binding Site [chemical binding]; other site 317655005313 Molecular Tunnel; other site 317655005314 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 317655005315 eight transmembrane protein EpsH (proposed exosortase); Region: 8TM_EpsH; cl10495 317655005316 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 317655005317 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 317655005318 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 317655005319 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 317655005320 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005321 polysaccharide deactylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 317655005322 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 317655005323 Domain of unknown function (DUF3473); Region: DUF3473; pfam11959 317655005324 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 317655005325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005326 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 317655005327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005328 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 317655005329 Chain length determinant protein; Region: Wzz; cl15801 317655005330 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 317655005331 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 317655005332 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 317655005333 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 317655005334 Pyridoxal-dependent decarboxylase, C-terminal sheet domain; Region: Orn_DAP_Arg_deC; pfam00278 317655005335 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 317655005336 AMP-binding enzyme; Region: AMP-binding; cl15778 317655005337 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005338 hydrolase, ortholog 2, exosortase system type 1 associated; Region: hydr2_PEP; TIGR03101 317655005339 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 317655005340 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; cl09155 317655005341 active site 317655005342 WYL domain; Region: WYL; cl14852 317655005343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655005344 metal binding site [ion binding]; metal-binding site 317655005345 active site 317655005346 I-site; other site 317655005347 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 317655005348 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 317655005349 metal binding site [ion binding]; metal-binding site 317655005350 dimer interface [polypeptide binding]; other site 317655005351 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 317655005352 Succinylarginine dihydrolase; Region: AstB; cl01511 317655005353 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; cl16911 317655005354 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 317655005355 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; cl12031 317655005356 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; cl12031 317655005357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 317655005358 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 317655005359 metabolite-proton symporter; Region: 2A0106; TIGR00883 317655005360 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 317655005361 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 317655005362 ATP binding site [chemical binding]; other site 317655005363 Mg++ binding site [ion binding]; other site 317655005364 motif III; other site 317655005365 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 317655005366 nucleotide binding region [chemical binding]; other site 317655005367 ATP-binding site [chemical binding]; other site 317655005368 glycerol kinase; Region: glycerol_kin; TIGR01311 317655005369 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 317655005370 N- and C-terminal domain interface [polypeptide binding]; other site 317655005371 active site 317655005372 MgATP binding site [chemical binding]; other site 317655005373 catalytic site [active] 317655005374 metal binding site [ion binding]; metal-binding site 317655005375 glycerol binding site [chemical binding]; other site 317655005376 homotetramer interface [polypeptide binding]; other site 317655005377 homodimer interface [polypeptide binding]; other site 317655005378 FBP binding site [chemical binding]; other site 317655005379 protein IIAGlc interface [polypeptide binding]; other site 317655005380 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 317655005381 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 317655005382 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 317655005383 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 317655005384 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655005385 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655005386 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655005387 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655005388 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 317655005389 Surface antigen; Region: Bac_surface_Ag; cl03097 317655005390 Surface antigen; Region: Bac_surface_Ag; cl03097 317655005391 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 317655005392 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 317655005393 active site 317655005394 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 317655005395 protein binding site [polypeptide binding]; other site 317655005396 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 317655005397 putative substrate binding region [chemical binding]; other site 317655005398 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 317655005399 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 317655005400 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 317655005401 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 317655005402 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 317655005403 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; cl00230 317655005404 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 317655005405 catalytic residue [active] 317655005406 putative FPP diphosphate binding site; other site 317655005407 putative FPP binding hydrophobic cleft; other site 317655005408 dimer interface [polypeptide binding]; other site 317655005409 putative IPP diphosphate binding site; other site 317655005410 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 round of...; Region: RRF; cd00520 317655005411 hinge region; other site 317655005412 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 317655005413 putative nucleotide binding site [chemical binding]; other site 317655005414 uridine monophosphate binding site [chemical binding]; other site 317655005415 homohexameric interface [polypeptide binding]; other site 317655005416 elongation factor Ts; Provisional; Region: tsf; PRK09377 317655005417 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 317655005418 Elongation factor TS; Region: EF_TS; pfam00889 317655005419 Elongation factor TS; Region: EF_TS; pfam00889 317655005420 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 317655005421 rRNA interaction site [nucleotide binding]; other site 317655005422 S8 interaction site; other site 317655005423 putative laminin-1 binding site; other site 317655005424 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 317655005425 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 317655005426 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 317655005427 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 317655005428 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 317655005429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005430 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 317655005431 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 317655005432 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655005433 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 317655005434 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655005435 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 317655005436 putative active site [active] 317655005437 catalytic triad [active] 317655005438 dimer interface [polypeptide binding]; other site 317655005439 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 317655005440 nudix motif; other site 317655005441 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 317655005442 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 317655005443 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655005444 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 317655005445 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 317655005446 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 317655005447 NAD binding site [chemical binding]; other site 317655005448 Phe binding site; other site 317655005449 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 317655005450 Helix-turn-helix domains; Region: HTH; cl00088 317655005451 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 317655005452 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 317655005453 active site 317655005454 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 317655005455 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 317655005456 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; cl12031 317655005457 GAF domain; Region: GAF; cl15785 317655005458 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 317655005459 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 317655005460 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 317655005461 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 317655005462 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 317655005463 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 317655005464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005465 Walker A/P-loop; other site 317655005466 ATP binding site [chemical binding]; other site 317655005467 Q-loop/lid; other site 317655005468 ABC transporter signature motif; other site 317655005469 Walker B; other site 317655005470 D-loop; other site 317655005471 H-loop/switch region; other site 317655005472 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 317655005473 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 317655005474 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 317655005475 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655005476 ligand binding site [chemical binding]; other site 317655005477 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 317655005478 Putative phage tail protein; Region: Phage-tail_3; pfam13550 317655005479 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 317655005480 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 317655005481 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 317655005482 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 317655005483 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 317655005484 Phage major tail protein 2; Region: Phage_tail_2; cl11463 317655005485 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 317655005486 Phage capsid family; Region: Phage_capsid; pfam05065 317655005487 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 317655005488 Phage-related protein [Function unknown]; Region: COG4695; cl01923 317655005489 Uncharacterized conserved protein [Function unknown]; Region: COG1432 317655005490 LabA_like proteins; Region: LabA_like; cd06167 317655005491 putative metal binding site [ion binding]; other site 317655005492 Uncharacterized conserved protein [Function unknown]; Region: COG5323 317655005493 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 317655005494 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; cl12031 317655005495 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 317655005496 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655005497 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 317655005498 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; cl12031 317655005499 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655005500 active site 317655005501 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 317655005502 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 317655005503 active site 317655005504 purine riboside binding site [chemical binding]; other site 317655005505 rod shape-determining protein MreB; Provisional; Region: PRK13927 317655005506 Cell division protein FtsA; Region: FtsA; cl11496 317655005507 putative diguanylate cyclase; Provisional; Region: PRK09776 317655005508 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 317655005509 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 317655005510 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 317655005511 active site 317655005512 HIGH motif; other site 317655005513 dimer interface [polypeptide binding]; other site 317655005514 KMSKS motif; other site 317655005515 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 317655005516 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 317655005517 SecA binding site; other site 317655005518 Preprotein binding site; other site 317655005519 Tim44-like domain; Region: Tim44; cl09208 317655005520 MltA specific insert domain; Region: MltA; cl08398 317655005521 3D domain; Region: 3D; cl01439 317655005522 Smr domain; Region: Smr; cl02619 317655005523 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 317655005524 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 317655005525 metal binding site [ion binding]; metal-binding site 317655005526 dimer interface [polypeptide binding]; other site 317655005527 Cupin domain; Region: Cupin_2; cl09118 317655005528 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655005529 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 317655005530 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 317655005531 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 317655005532 thiamine-monophosphate kinase; Region: thiL; TIGR01379 317655005533 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 317655005534 ATP binding site [chemical binding]; other site 317655005535 dimerization interface [polypeptide binding]; other site 317655005536 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 317655005537 histidinol dehydrogenase; Region: hisD; TIGR00069 317655005538 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 317655005539 NAD binding site [chemical binding]; other site 317655005540 dimerization interface [polypeptide binding]; other site 317655005541 product binding site; other site 317655005542 substrate binding site [chemical binding]; other site 317655005543 zinc binding site [ion binding]; other site 317655005544 catalytic residues [active] 317655005545 ATP phosphoribosyltransferase; Region: HisG; cl15266 317655005546 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 317655005547 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 317655005548 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 317655005549 Ligand Binding Site [chemical binding]; other site 317655005550 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 317655005551 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 317655005552 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005553 GTP-binding protein LepA; Provisional; Region: PRK05433 317655005554 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 317655005555 G1 box; other site 317655005556 putative GEF interaction site [polypeptide binding]; other site 317655005557 GTP/Mg2+ binding site [chemical binding]; other site 317655005558 Switch I region; other site 317655005559 G2 box; other site 317655005560 G3 box; other site 317655005561 Switch II region; other site 317655005562 G4 box; other site 317655005563 G5 box; other site 317655005564 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 317655005565 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 317655005566 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 317655005567 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655005568 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 317655005569 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 317655005570 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 317655005571 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655005572 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 317655005573 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 317655005574 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 317655005575 active site 317655005576 substrate-binding site [chemical binding]; other site 317655005577 metal-binding site [ion binding] 317655005578 ATP binding site [chemical binding]; other site 317655005579 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 317655005580 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 317655005581 active site 317655005582 phosphorylation site [posttranslational modification] 317655005583 intermolecular recognition site; other site 317655005584 dimerization interface [polypeptide binding]; other site 317655005585 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 317655005586 DNA binding site [nucleotide binding] 317655005587 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 317655005588 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 317655005589 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 317655005590 dimer interface [polypeptide binding]; other site 317655005591 phosphorylation site [posttranslational modification] 317655005592 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 317655005593 ATP binding site [chemical binding]; other site 317655005594 Mg2+ binding site [ion binding]; other site 317655005595 G-X-G motif; other site 317655005596 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 317655005597 Hpr binding site; other site 317655005598 active site 317655005599 homohexamer subunit interaction site [polypeptide binding]; other site 317655005600 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 317655005601 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 317655005602 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 317655005603 active pocket/dimerization site; other site 317655005604 active site 317655005605 phosphorylation site [posttranslational modification] 317655005606 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 317655005607 dimerization domain swap beta strand [polypeptide binding]; other site 317655005608 regulatory protein interface [polypeptide binding]; other site 317655005609 active site 317655005610 regulatory phosphorylation site [posttranslational modification]; other site 317655005611 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 317655005612 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 317655005613 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 317655005614 Predicted membrane protein [Function unknown]; Region: COG3650 317655005615 META domain; Region: META; cl01245 317655005616 RmuC family; Region: RmuC; pfam02646 317655005617 Protein of unknown function (DUF461); Region: DUF461; cl01071 317655005618 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 317655005619 Cell division protein FtsA; Region: FtsA; cl11496 317655005620 chaperone protein DnaJ; Provisional; Region: PRK10767 317655005621 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 317655005622 HSP70 interaction site [polypeptide binding]; other site 317655005623 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 317655005624 substrate binding site [polypeptide binding]; other site 317655005625 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 317655005626 Zn binding sites [ion binding]; other site 317655005627 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 317655005628 dimer interface [polypeptide binding]; other site 317655005629 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 317655005630 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655005631 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655005632 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 317655005633 Uncharacterized conserved protein [Function unknown]; Region: COG2128 317655005634 DoxX; Region: DoxX; cl00976 317655005635 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 317655005636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655005637 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 317655005638 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 317655005639 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 317655005640 FeS/SAM binding site; other site 317655005641 TRAM domain; Region: TRAM; cl01282 317655005642 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 317655005643 putative acyl-acceptor binding pocket; other site 317655005644 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 317655005645 metal binding site 2 [ion binding]; metal-binding site 317655005646 putative DNA binding helix; other site 317655005647 metal binding site 1 [ion binding]; metal-binding site 317655005648 dimer interface [polypeptide binding]; other site 317655005649 structural Zn2+ binding site [ion binding]; other site 317655005650 Predicted transcriptional regulator [Transcription]; Region: COG4957 317655005651 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 317655005652 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 317655005653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655005654 Coenzyme A binding pocket [chemical binding]; other site 317655005655 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 317655005656 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 317655005657 putative FMN binding site [chemical binding]; other site 317655005658 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 317655005659 NifU-like domain; Region: NifU; cl00484 317655005660 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 317655005661 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 317655005662 putative dimer interface [polypeptide binding]; other site 317655005663 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 317655005664 putative dimer interface [polypeptide binding]; other site 317655005665 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 317655005666 Usg-like family; Region: Usg; cl11567 317655005667 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 317655005668 oligomerisation interface [polypeptide binding]; other site 317655005669 mobile loop; other site 317655005670 roof hairpin; other site 317655005671 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 317655005672 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 317655005673 ring oligomerisation interface [polypeptide binding]; other site 317655005674 ATP/Mg binding site [chemical binding]; other site 317655005675 stacking interactions; other site 317655005676 hinge regions; other site 317655005677 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 317655005678 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 317655005679 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 317655005680 putative catalytic residue [active] 317655005681 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 317655005682 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655005683 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655005684 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 317655005685 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 317655005686 putative substrate translocation pore; other site 317655005687 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 317655005688 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 317655005689 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 317655005690 Predicted transcriptional regulator [Transcription]; Region: COG2944 317655005691 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 317655005692 non-specific DNA binding site [nucleotide binding]; other site 317655005693 salt bridge; other site 317655005694 sequence-specific DNA binding site [nucleotide binding]; other site 317655005695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655005696 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 317655005697 C-terminal domain interface [polypeptide binding]; other site 317655005698 GSH binding site (G-site) [chemical binding]; other site 317655005699 dimer interface [polypeptide binding]; other site 317655005700 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 317655005701 N-terminal domain interface [polypeptide binding]; other site 317655005702 dimer interface [polypeptide binding]; other site 317655005703 substrate binding pocket (H-site) [chemical binding]; other site 317655005704 CHASE domain; Region: CHASE; cl01369 317655005705 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 317655005706 Histidine kinase; Region: HisKA_2; cl06527 317655005707 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655005708 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655005709 DNA binding site [nucleotide binding] 317655005710 domain linker motif; other site 317655005711 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 317655005712 putative dimerization interface [polypeptide binding]; other site 317655005713 putative ligand binding site [chemical binding]; other site 317655005714 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 317655005715 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655005716 N-terminal plug; other site 317655005717 ligand-binding site [chemical binding]; other site 317655005718 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 317655005719 aconitate hydratase; Validated; Region: PRK09277 317655005720 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 317655005721 substrate binding site [chemical binding]; other site 317655005722 ligand binding site [chemical binding]; other site 317655005723 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 317655005724 substrate binding site [chemical binding]; other site 317655005725 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 317655005726 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 317655005727 Helix-turn-helix domains; Region: HTH; cl00088 317655005728 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 317655005729 Catalytic site; other site 317655005730 CrcB-like protein; Region: CRCB; cl09114 317655005731 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 317655005732 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 317655005733 active site 317655005734 ATP12 chaperone protein; Region: ATP12; cl02228 317655005735 Transposase domain (DUF772); Region: DUF772; pfam05598 317655005736 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 317655005737 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 317655005738 putative active site [active] 317655005739 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 317655005740 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 in DNA...; Region: TOP4c; cd00187 317655005741 CAP-like domain; other site 317655005742 active site 317655005743 primary dimer interface [polypeptide binding]; other site 317655005744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655005745 metal binding site [ion binding]; metal-binding site 317655005746 active site 317655005747 I-site; other site 317655005748 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 317655005749 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 317655005750 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 317655005751 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 317655005752 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 317655005753 putative active site [active] 317655005754 putative CoA binding site [chemical binding]; other site 317655005755 nudix motif; other site 317655005756 metal binding site [ion binding]; metal-binding site 317655005757 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 317655005758 Predicted acetyltransferase [General function prediction only]; Region: COG3153 317655005759 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 317655005760 pteridine reductase; Provisional; Region: PRK09135 317655005761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005762 NAD(P) binding site [chemical binding]; other site 317655005763 active site 317655005764 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655005765 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 317655005766 tetramerization interface [polypeptide binding]; other site 317655005767 NAD(P) binding site [chemical binding]; other site 317655005768 catalytic residues [active] 317655005769 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655005770 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 317655005771 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 317655005772 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 317655005773 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 317655005774 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655005775 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655005776 Helix-turn-helix domains; Region: HTH; cl00088 317655005777 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 317655005778 dimerization interface [polypeptide binding]; other site 317655005779 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 317655005780 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 317655005781 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655005782 extended (e) SDRs; Region: SDR_e; cd08946 317655005783 NAD(P) binding site [chemical binding]; other site 317655005784 active site 317655005785 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 317655005786 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655005787 putative C-terminal domain interface [polypeptide binding]; other site 317655005788 putative GSH binding site (G-site) [chemical binding]; other site 317655005789 putative dimer interface [polypeptide binding]; other site 317655005790 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 317655005791 putative N-terminal domain interface [polypeptide binding]; other site 317655005792 putative dimer interface [polypeptide binding]; other site 317655005793 putative substrate binding pocket (H-site) [chemical binding]; other site 317655005794 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 317655005795 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 317655005796 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 317655005797 substrate binding site [chemical binding]; other site 317655005798 ligand binding site [chemical binding]; other site 317655005799 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655005800 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 317655005801 substrate binding site [chemical binding]; other site 317655005802 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 317655005803 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 317655005804 NAD(P) binding site [chemical binding]; other site 317655005805 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 317655005806 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 317655005807 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 317655005808 putative NAD(P) binding site [chemical binding]; other site 317655005809 active site 317655005810 Bacitracin resistance protein BacA; Region: BacA; cl00858 317655005811 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 317655005812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655005813 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655005814 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 317655005815 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 317655005816 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 317655005817 active site 317655005818 dimer interface [polypeptide binding]; other site 317655005819 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 317655005820 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 317655005821 active site 317655005822 FMN binding site [chemical binding]; other site 317655005823 substrate binding site [chemical binding]; other site 317655005824 3Fe-4S cluster binding site [ion binding]; other site 317655005825 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 317655005826 domain interface; other site 317655005827 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655005828 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 317655005829 C-terminal domain interface [polypeptide binding]; other site 317655005830 GSH binding site (G-site) [chemical binding]; other site 317655005831 dimer interface [polypeptide binding]; other site 317655005832 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 317655005833 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 317655005834 S-adenosylmethionine binding site [chemical binding]; other site 317655005835 aspartate kinase; Reviewed; Region: PRK06635 317655005836 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 317655005837 putative nucleotide binding site [chemical binding]; other site 317655005838 putative catalytic residues [active] 317655005839 putative Mg ion binding site [ion binding]; other site 317655005840 putative aspartate binding site [chemical binding]; other site 317655005841 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 317655005842 putative allosteric regulatory site; other site 317655005843 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 317655005844 putative allosteric regulatory residue; other site 317655005845 Intracellular septation protein A; Region: IspA; cl01098 317655005846 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 317655005847 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 317655005848 heme binding site [chemical binding]; other site 317655005849 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 317655005850 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 317655005851 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 317655005852 FMN binding site [chemical binding]; other site 317655005853 substrate binding site [chemical binding]; other site 317655005854 putative catalytic residue [active] 317655005855 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 317655005856 GAF domain; Region: GAF; cl15785 317655005857 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 317655005858 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 317655005859 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; cl09155 317655005860 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 317655005861 active site 317655005862 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 317655005863 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 317655005864 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 317655005865 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655005866 recombination factor protein RarA; Reviewed; Region: PRK13342 317655005867 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 317655005868 Walker A motif; other site 317655005869 ATP binding site [chemical binding]; other site 317655005870 Walker B motif; other site 317655005871 arginine finger; other site 317655005872 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 317655005873 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 317655005874 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 317655005875 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 317655005876 Transporter associated domain; Region: CorC_HlyC; cl08393 317655005877 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 317655005878 Mechanosensitive ion channel; Region: MS_channel; pfam00924 317655005879 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 317655005880 putative active site [active] 317655005881 putative catalytic site [active] 317655005882 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 317655005883 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 317655005884 dimer interface [polypeptide binding]; other site 317655005885 active site 317655005886 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 317655005887 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 317655005888 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 317655005889 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 317655005890 DNA binding residues [nucleotide binding] 317655005891 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655005892 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 317655005893 active site 317655005894 metal binding site [ion binding]; metal-binding site 317655005895 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 317655005896 Transposase domain (DUF772); Region: DUF772; pfam05598 317655005897 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 317655005898 Phosphopantetheine attachment site; Region: PP-binding; cl09936 317655005899 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 317655005900 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 317655005901 substrate-cofactor binding pocket; other site 317655005902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655005903 catalytic residue [active] 317655005904 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 317655005905 dimer interface [polypeptide binding]; other site 317655005906 phosphorylation site [posttranslational modification] 317655005907 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 317655005908 ATP binding site [chemical binding]; other site 317655005909 Mg2+ binding site [ion binding]; other site 317655005910 G-X-G motif; other site 317655005911 Response regulator receiver domain; Region: Response_reg; pfam00072 317655005912 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 317655005913 active site 317655005914 phosphorylation site [posttranslational modification] 317655005915 intermolecular recognition site; other site 317655005916 dimerization interface [polypeptide binding]; other site 317655005917 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 317655005918 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 317655005919 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 317655005920 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 317655005921 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 317655005922 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 317655005923 Fatty acid desaturase; Region: FA_desaturase; pfam00487 317655005924 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 317655005925 putative di-iron ligands [ion binding]; other site 317655005926 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 317655005927 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 317655005928 putative catalytic site [active] 317655005929 putative phosphate binding site [ion binding]; other site 317655005930 active site 317655005931 metal binding site A [ion binding]; metal-binding site 317655005932 DNA binding site [nucleotide binding] 317655005933 putative AP binding site [nucleotide binding]; other site 317655005934 putative metal binding site B [ion binding]; other site 317655005935 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 317655005936 Peptidase family M23; Region: Peptidase_M23; pfam01551 317655005937 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 317655005938 dinuclear metal binding motif [ion binding]; other site 317655005939 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 317655005940 catalytic triad [active] 317655005941 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 317655005942 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 317655005943 metal binding triad; other site 317655005944 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 317655005945 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 317655005946 metal binding triad; other site 317655005947 two-component response regulator; Provisional; Region: PRK09191 317655005948 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655005949 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 317655005950 active site 317655005951 phosphorylation site [posttranslational modification] 317655005952 intermolecular recognition site; other site 317655005953 dimerization interface [polypeptide binding]; other site 317655005954 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 317655005955 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 317655005956 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 317655005957 PAS domain; Region: PAS_9; pfam13426 317655005958 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 317655005959 putative active site [active] 317655005960 heme pocket [chemical binding]; other site 317655005961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655005962 metal binding site [ion binding]; metal-binding site 317655005963 active site 317655005964 I-site; other site 317655005965 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 317655005966 PilZ domain; Region: PilZ; cl01260 317655005967 PilZ domain; Region: PilZ; cl01260 317655005968 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 317655005969 non-specific DNA binding site [nucleotide binding]; other site 317655005970 salt bridge; other site 317655005971 sequence-specific DNA binding site [nucleotide binding]; other site 317655005972 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 317655005973 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 317655005974 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 317655005975 active site 317655005976 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 317655005977 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 317655005978 active site 317655005979 (T/H)XGH motif; other site 317655005980 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 317655005981 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 317655005982 substrate binding pocket [chemical binding]; other site 317655005983 chain length determination region; other site 317655005984 substrate-Mg2+ binding site; other site 317655005985 catalytic residues [active] 317655005986 aspartate-rich region 1; other site 317655005987 active site lid residues [active] 317655005988 aspartate-rich region 2; other site 317655005989 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 317655005990 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 317655005991 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 317655005992 dimerization interface [polypeptide binding]; other site 317655005993 ATP binding site [chemical binding]; other site 317655005994 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 317655005995 dimerization interface [polypeptide binding]; other site 317655005996 ATP binding site [chemical binding]; other site 317655005997 Protein of unknown function DUF72; Region: DUF72; cl00777 317655005998 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 317655005999 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 317655006000 putative FMN binding site [chemical binding]; other site 317655006001 putative dimer interface [polypeptide binding]; other site 317655006002 Predicted membrane protein [Function unknown]; Region: COG2311 317655006003 Protein of unknown function (DUF418); Region: DUF418; cl12135 317655006004 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; cl00086 317655006005 GTP-binding protein Der; Reviewed; Region: PRK00093 317655006006 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 317655006007 G1 box; other site 317655006008 GTP/Mg2+ binding site [chemical binding]; other site 317655006009 Switch I region; other site 317655006010 G2 box; other site 317655006011 Switch II region; other site 317655006012 G3 box; other site 317655006013 G4 box; other site 317655006014 G5 box; other site 317655006015 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 317655006016 G1 box; other site 317655006017 GTP/Mg2+ binding site [chemical binding]; other site 317655006018 Switch I region; other site 317655006019 G2 box; other site 317655006020 G3 box; other site 317655006021 Switch II region; other site 317655006022 G4 box; other site 317655006023 G5 box; other site 317655006024 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 317655006025 Trp docking motif [polypeptide binding]; other site 317655006026 active site 317655006027 PQQ-like domain; Region: PQQ_2; pfam13360 317655006028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 317655006029 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 317655006030 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 317655006031 oligomerization interface [polypeptide binding]; other site 317655006032 active site 317655006033 metal binding site [ion binding]; metal-binding site 317655006034 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 317655006035 non-specific DNA binding site [nucleotide binding]; other site 317655006036 salt bridge; other site 317655006037 sequence-specific DNA binding site [nucleotide binding]; other site 317655006038 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 317655006039 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 317655006040 putative active site [active] 317655006041 catalytic site [active] 317655006042 putative metal binding site [ion binding]; other site 317655006043 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 317655006044 ArsC family; Region: ArsC; pfam03960 317655006045 putative catalytic residues [active] 317655006046 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 317655006047 ligand binding site [chemical binding]; other site 317655006048 flexible hinge region; other site 317655006049 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 317655006050 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 317655006051 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 317655006052 PA/protease or protease-like domain interface [polypeptide binding]; other site 317655006053 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 317655006054 metal binding site [ion binding]; metal-binding site 317655006055 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; cl09155 317655006056 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 317655006057 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 317655006058 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 317655006059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 317655006060 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655006061 gamma-glutamyl kinase; Provisional; Region: PRK05429 317655006062 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 317655006063 nucleotide binding site [chemical binding]; other site 317655006064 substrate binding site [chemical binding]; other site 317655006065 PUA domain; Region: PUA; cl00607 317655006066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006067 NAD(P) binding site [chemical binding]; other site 317655006068 active site 317655006069 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 317655006070 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 317655006071 tandem repeat interface [polypeptide binding]; other site 317655006072 oligomer interface [polypeptide binding]; other site 317655006073 active site residues [active] 317655006074 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 317655006075 tandem repeat interface [polypeptide binding]; other site 317655006076 oligomer interface [polypeptide binding]; other site 317655006077 active site residues [active] 317655006078 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 317655006079 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; cl12031 317655006080 UPF0126 domain; Region: UPF0126; pfam03458 317655006081 UPF0126 domain; Region: UPF0126; pfam03458 317655006082 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 317655006083 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 317655006084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655006086 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655006087 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 317655006088 GIY-YIG motif/motif A; other site 317655006089 putative active site [active] 317655006090 putative metal binding site [ion binding]; other site 317655006091 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 317655006092 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 317655006093 E3 interaction surface; other site 317655006094 lipoyl attachment site [posttranslational modification]; other site 317655006095 e3 binding domain; Region: E3_binding; pfam02817 317655006096 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 317655006097 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 317655006098 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 317655006099 TPP-binding site [chemical binding]; other site 317655006100 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 317655006101 dimer interface [polypeptide binding]; other site 317655006102 PYR/PP interface [polypeptide binding]; other site 317655006103 TPP binding site [chemical binding]; other site 317655006104 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 317655006105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006106 CoA-ligase; Region: Ligase_CoA; cl02894 317655006107 malate dehydrogenase; Reviewed; Region: PRK06223 317655006108 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 317655006109 NAD(P) binding site [chemical binding]; other site 317655006110 dimer interface [polypeptide binding]; other site 317655006111 tetramer (dimer of dimers) interface [polypeptide binding]; other site 317655006112 substrate binding site [chemical binding]; other site 317655006113 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 317655006114 Predicted ATPase [General function prediction only]; Region: COG1485 317655006115 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 317655006116 CoenzymeA binding site [chemical binding]; other site 317655006117 subunit interaction site [polypeptide binding]; other site 317655006118 PHB binding site; other site 317655006119 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 317655006120 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 317655006121 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655006122 Nucleopolyhedrovirus protein of unknown function (DUF918); Region: DUF918; pfam06033 317655006123 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 317655006124 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 317655006125 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 317655006126 active site 317655006127 metal-binding site 317655006128 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 317655006129 active site 317655006130 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; cl12031 317655006131 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 317655006132 substrate binding pocket [chemical binding]; other site 317655006133 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 317655006134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 317655006135 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 317655006136 putative active site [active] 317655006137 putative metal binding site [ion binding]; other site 317655006138 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 317655006139 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655006140 active site 317655006141 substrate binding site [chemical binding]; other site 317655006142 ATP binding site [chemical binding]; other site 317655006143 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 317655006144 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 317655006145 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 317655006146 protein binding site [polypeptide binding]; other site 317655006147 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 317655006148 protein binding site [polypeptide binding]; other site 317655006149 HflC protein; Region: hflC; TIGR01932 317655006150 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 317655006151 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 317655006152 HflK protein; Region: hflK; TIGR01933 317655006153 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 317655006154 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 317655006155 Walker A motif; other site 317655006156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006157 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 317655006158 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 317655006159 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 317655006160 ferrochelatase; Reviewed; Region: hemH; PRK00035 317655006161 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 317655006162 active site 317655006163 C-terminal domain interface [polypeptide binding]; other site 317655006164 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 317655006165 active site 317655006166 N-terminal domain interface [polypeptide binding]; other site 317655006167 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 317655006168 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 317655006169 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 317655006170 NAD(P) binding site [chemical binding]; other site 317655006171 homotetramer interface [polypeptide binding]; other site 317655006172 homodimer interface [polypeptide binding]; other site 317655006173 active site 317655006174 Ribbon-helix-helix domain; Region: RHH_4; cl01775 317655006175 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 317655006176 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 317655006177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655006179 Helix-turn-helix domains; Region: HTH; cl00088 317655006180 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 317655006181 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; cl16911 317655006182 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 317655006183 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 317655006184 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 317655006185 putative NADH binding site [chemical binding]; other site 317655006186 putative active site [active] 317655006187 nudix motif; other site 317655006188 putative metal binding site [ion binding]; other site 317655006189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655006190 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 317655006191 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 317655006192 minor groove reading motif; other site 317655006193 helix-hairpin-helix signature motif; other site 317655006194 substrate binding pocket [chemical binding]; other site 317655006195 active site 317655006196 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 317655006197 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 317655006198 DNA binding and oxoG recognition site [nucleotide binding] 317655006199 Protein of unknown function (DUF721); Region: DUF721; cl02324 317655006200 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655006201 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655006202 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 317655006203 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 317655006204 Walker A/P-loop; other site 317655006205 ATP binding site [chemical binding]; other site 317655006206 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 317655006207 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 317655006208 ABC transporter signature motif; other site 317655006209 Walker B; other site 317655006210 D-loop; other site 317655006211 H-loop/switch region; other site 317655006212 UbiA prenyltransferase family; Region: UbiA; cl00337 317655006213 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655006214 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 317655006215 TadE-like protein; Region: TadE; cl10688 317655006216 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 317655006217 TadE-like protein; Region: TadE; cl10688 317655006218 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 317655006219 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 317655006220 metal ion-dependent adhesion site (MIDAS); other site 317655006221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 317655006222 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 317655006223 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 317655006224 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655006225 Fibronectin type III-like domain; Region: Fn3-like; cl15273 317655006226 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 317655006227 primosome assembly protein PriA; Validated; Region: PRK05580 317655006228 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 317655006229 ATP binding site [chemical binding]; other site 317655006230 putative Mg++ binding site [ion binding]; other site 317655006231 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 317655006232 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 317655006233 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 317655006234 tetramer interface [polypeptide binding]; other site 317655006235 active site 317655006236 Mg2+/Mn2+ binding site [ion binding]; other site 317655006237 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 317655006238 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 317655006239 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 317655006240 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 317655006241 DNA binding site [nucleotide binding] 317655006242 active site 317655006243 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 317655006244 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 317655006245 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 317655006246 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 317655006247 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 317655006248 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 317655006249 beta subunit interaction interface [polypeptide binding]; other site 317655006250 Walker A motif; other site 317655006251 ATP binding site [chemical binding]; other site 317655006252 Walker B motif; other site 317655006253 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 317655006254 ATP synthase; Region: ATP-synt; cl00365 317655006255 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 317655006256 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 317655006257 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 317655006258 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 317655006259 alpha subunit interaction interface [polypeptide binding]; other site 317655006260 Walker A motif; other site 317655006261 ATP binding site [chemical binding]; other site 317655006262 Walker B motif; other site 317655006263 inhibitor binding site; inhibition site 317655006264 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 317655006265 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 317655006266 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 317655006267 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 317655006268 ATP binding site [chemical binding]; other site 317655006269 Walker A motif; other site 317655006270 hexamer interface [polypeptide binding]; other site 317655006271 Walker B motif; other site 317655006272 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; cl16911 317655006273 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655006274 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 317655006275 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 317655006276 acyl-CoA synthetase; Validated; Region: PRK09192 317655006277 AMP-binding enzyme; Region: AMP-binding; cl15778 317655006278 PAS domain S-box; Region: sensory_box; TIGR00229 317655006279 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 317655006280 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655006281 metal binding site [ion binding]; metal-binding site 317655006282 active site 317655006283 I-site; other site 317655006284 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 317655006285 NlpC/P60 family; Region: NLPC_P60; cl11438 317655006286 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 317655006287 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; cl16911 317655006288 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 317655006289 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 317655006290 pseudouridine synthase; Region: TIGR00093 317655006291 active site 317655006292 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 317655006293 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 317655006294 G1 box; other site 317655006295 putative GEF interaction site [polypeptide binding]; other site 317655006296 GTP/Mg2+ binding site [chemical binding]; other site 317655006297 Switch I region; other site 317655006298 G2 box; other site 317655006299 G3 box; other site 317655006300 Switch II region; other site 317655006301 G4 box; other site 317655006302 G5 box; other site 317655006303 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 317655006304 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 317655006305 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 317655006306 binding surface 317655006307 TPR motif; other site 317655006308 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 317655006309 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 317655006310 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 317655006311 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 317655006312 Membrane transport protein; Region: Mem_trans; cl09117 317655006313 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 317655006314 ferredoxin-NADP+ reductase; Region: PLN02852 317655006315 Predicted membrane protein [Function unknown]; Region: COG4270 317655006316 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 317655006317 active site 317655006318 dimer interface [polypeptide binding]; other site 317655006319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655006320 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655006321 active site 317655006322 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 317655006323 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 317655006324 metal binding site [ion binding]; metal-binding site 317655006325 dimer interface [polypeptide binding]; other site 317655006326 L-aspartate oxidase; Provisional; Region: PRK09077 317655006327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006328 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 317655006329 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 317655006330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006331 Walker A/P-loop; other site 317655006332 ATP binding site [chemical binding]; other site 317655006333 Q-loop/lid; other site 317655006334 ABC transporter signature motif; other site 317655006335 Walker B; other site 317655006336 D-loop; other site 317655006337 H-loop/switch region; other site 317655006338 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 317655006339 Zinc-finger domain; Region: zf-CHCC; cl01821 317655006340 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 317655006341 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 317655006342 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 317655006343 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 317655006344 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 317655006345 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 317655006346 putative catalytic site [active] 317655006347 putative metal binding site [ion binding]; other site 317655006348 putative phosphate binding site [ion binding]; other site 317655006349 Nitrogen regulatory protein P-II; Region: P-II; cl00412 317655006350 Nitrogen regulatory protein P-II; Region: P-II; smart00938 317655006351 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 317655006352 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655006353 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006354 N-terminal plug; other site 317655006355 ligand-binding site [chemical binding]; other site 317655006356 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655006357 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 317655006358 active site 317655006359 Helix-turn-helix domains; Region: HTH; cl00088 317655006360 Helix-turn-helix domains; Region: HTH; cl00088 317655006361 choline dehydrogenase; Validated; Region: PRK02106 317655006362 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 317655006363 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 317655006364 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 317655006365 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 317655006366 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 317655006367 ATP binding site [chemical binding]; other site 317655006368 putative Mg++ binding site [ion binding]; other site 317655006369 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 317655006370 nucleotide binding region [chemical binding]; other site 317655006371 ATP-binding site [chemical binding]; other site 317655006372 RQC domain; Region: RQC; cl09632 317655006373 HRDC domain; Region: HRDC; cl02578 317655006374 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 317655006375 amphipathic channel; other site 317655006376 Asn-Pro-Ala signature motifs; other site 317655006377 Low molecular weight phosphatase family; Region: LMWPc; cl00105 317655006378 active site 317655006379 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 317655006380 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655006381 putative metal binding site [ion binding]; other site 317655006382 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 317655006383 putative DNA binding site [nucleotide binding]; other site 317655006384 putative Zn2+ binding site [ion binding]; other site 317655006385 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 317655006386 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 317655006387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006388 Walker A/P-loop; other site 317655006389 ATP binding site [chemical binding]; other site 317655006390 Q-loop/lid; other site 317655006391 ABC transporter signature motif; other site 317655006392 Walker B; other site 317655006393 D-loop; other site 317655006394 H-loop/switch region; other site 317655006395 OstA-like protein; Region: OstA; cl00844 317655006396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 317655006397 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 317655006398 catalytic site [active] 317655006399 putative active site [active] 317655006400 putative substrate binding site [chemical binding]; other site 317655006401 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 protein; Region: CSP_CDS; cd04458 317655006402 DNA-binding site [nucleotide binding]; DNA binding site 317655006403 RNA-binding motif; other site 317655006404 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 protein; Region: CSP_CDS; cd04458 317655006405 DNA-binding site [nucleotide binding]; DNA binding site 317655006406 RNA-binding motif; other site 317655006407 Protein of unknown function, DUF606; Region: DUF606; cl01273 317655006408 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 317655006409 active site 1 [active] 317655006410 dimer interface [polypeptide binding]; other site 317655006411 hexamer interface [polypeptide binding]; other site 317655006412 active site 2 [active] 317655006413 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655006414 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 317655006415 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655006416 active site 317655006417 metal binding site [ion binding]; metal-binding site 317655006418 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655006419 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 317655006420 putative C-terminal domain interface [polypeptide binding]; other site 317655006421 putative GSH binding site (G-site) [chemical binding]; other site 317655006422 putative dimer interface [polypeptide binding]; other site 317655006423 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 317655006424 putative N-terminal domain interface [polypeptide binding]; other site 317655006425 putative dimer interface [polypeptide binding]; other site 317655006426 putative substrate binding pocket (H-site) [chemical binding]; other site 317655006427 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 317655006428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655006429 Helix-turn-helix domains; Region: HTH; cl00088 317655006430 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 317655006431 putative effector binding pocket; other site 317655006432 putative dimerization interface [polypeptide binding]; other site 317655006433 MltA-interacting protein MipA; Region: MipA; cl01504 317655006434 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 317655006435 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 317655006436 TPP-binding site; other site 317655006437 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 317655006438 PYR/PP interface [polypeptide binding]; other site 317655006439 dimer interface [polypeptide binding]; other site 317655006440 TPP binding site [chemical binding]; other site 317655006441 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 317655006442 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 317655006443 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 317655006444 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 317655006445 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655006446 active site 317655006447 HIGH motif; other site 317655006448 nucleotide binding site [chemical binding]; other site 317655006449 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 317655006450 active site 317655006451 KMSKS motif; other site 317655006452 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 317655006453 tRNA binding surface [nucleotide binding]; other site 317655006454 anticodon binding site; other site 317655006455 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 317655006456 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 317655006457 active site 317655006458 Riboflavin kinase; Region: Flavokinase; cl03312 317655006459 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 317655006460 active site 317655006461 dimer interface [polypeptide binding]; other site 317655006462 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 317655006463 folate binding site [chemical binding]; other site 317655006464 NADP+ binding site [chemical binding]; other site 317655006465 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 317655006466 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655006467 AIR carboxylase; Region: AIRC; cl00310 317655006468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655006469 metal binding site [ion binding]; metal-binding site 317655006470 active site 317655006471 I-site; other site 317655006472 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 317655006473 dimerization interface [polypeptide binding]; other site 317655006474 DPS ferroxidase diiron center [ion binding]; other site 317655006475 ion pore; other site 317655006476 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 317655006477 Helix-turn-helix domains; Region: HTH; cl00088 317655006478 WYL domain; Region: WYL; cl14852 317655006479 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 317655006480 ThiC-associated domain; Region: ThiC-associated; pfam13667 317655006481 ThiC family; Region: ThiC; cl08031 317655006482 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 317655006483 N-acetyltransferase; Region: Acetyltransf_2; cl00949 317655006484 OsmC-like protein; Region: OsmC; cl00767 317655006485 Protein of unknown function (DUF962); Region: DUF962; cl01879 317655006486 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 317655006487 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 317655006488 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 317655006489 ligand binding site [chemical binding]; other site 317655006490 active site 317655006491 UGI interface [polypeptide binding]; other site 317655006492 catalytic site [active] 317655006493 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655006494 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655006495 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 317655006496 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 317655006497 nucleotide binding site/active site [active] 317655006498 HIT family signature motif; other site 317655006499 catalytic residue [active] 317655006500 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 317655006501 MG2 domain; Region: A2M_N; pfam01835 317655006502 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 317655006503 Alpha-2-macroglobulin family; Region: A2M; pfam00207 317655006504 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 317655006505 Transglycosylase; Region: Transgly; cl07896 317655006506 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655006507 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 317655006508 Spore germination protein; Region: Spore_permease; cl15802 317655006509 amino acid transporter; Region: 2A0306; TIGR00909 317655006510 Spore germination protein; Region: Spore_permease; cl15802 317655006511 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 317655006512 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 317655006513 putative substrate translocation pore; other site 317655006514 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 317655006515 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 317655006516 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655006517 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 317655006518 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 317655006519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 317655006520 Penicillin amidase; Region: Penicil_amidase; pfam01804 317655006521 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 317655006522 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 317655006523 active site 317655006524 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 317655006525 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 317655006526 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 317655006527 interface (dimer of trimers) [polypeptide binding]; other site 317655006528 Substrate-binding/catalytic site; other site 317655006529 Zn-binding sites [ion binding]; other site 317655006530 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 317655006531 Clp amino terminal domain; Region: Clp_N; pfam02861 317655006532 Clp amino terminal domain; Region: Clp_N; pfam02861 317655006533 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 317655006534 Walker A motif; other site 317655006535 ATP binding site [chemical binding]; other site 317655006536 Walker B motif; other site 317655006537 arginine finger; other site 317655006538 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 317655006539 Walker A motif; other site 317655006540 ATP binding site [chemical binding]; other site 317655006541 Walker B motif; other site 317655006542 arginine finger; other site 317655006543 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 317655006544 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006545 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 317655006546 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006547 Outer membrane efflux protein; Region: OEP; pfam02321 317655006548 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 317655006549 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 317655006550 Winged helix-turn helix; Region: HTH_29; pfam13551 317655006551 Integrase core domain; Region: rve; cl01316 317655006552 Integrase core domain; Region: rve_3; cl15866 317655006553 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 317655006554 active site 317655006555 Int/Topo IB signature motif; other site 317655006556 DNA binding site [nucleotide binding] 317655006557 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 317655006558 dimerization interface [polypeptide binding]; other site 317655006559 putative DNA binding site [nucleotide binding]; other site 317655006560 putative Zn2+ binding site [ion binding]; other site 317655006561 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 317655006562 ArsC family; Region: ArsC; pfam03960 317655006563 catalytic residues [active] 317655006564 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 317655006565 Membrane transport protein; Region: Mem_trans; cl09117 317655006566 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655006567 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 317655006568 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 317655006569 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655006570 DNA-binding site [nucleotide binding]; DNA binding site 317655006571 UTRA domain; Region: UTRA; cl01230 317655006572 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 317655006573 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 317655006574 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655006575 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655006576 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655006577 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 317655006578 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 317655006579 Walker A/P-loop; other site 317655006580 ATP binding site [chemical binding]; other site 317655006581 Q-loop/lid; other site 317655006582 ABC transporter signature motif; other site 317655006583 Walker B; other site 317655006584 D-loop; other site 317655006585 H-loop/switch region; other site 317655006586 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 317655006587 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 317655006588 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655006589 catalytic residue [active] 317655006590 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 317655006591 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 317655006592 conserved gate region; other site 317655006593 ABC-ATPase subunit interface; other site 317655006594 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 317655006595 dimer interface [polypeptide binding]; other site 317655006596 conserved gate region; other site 317655006597 putative PBP binding loops; other site 317655006598 ABC-ATPase subunit interface; other site 317655006599 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 317655006600 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 317655006601 substrate binding pocket [chemical binding]; other site 317655006602 membrane-bound complex binding site; other site 317655006603 hinge residues; other site 317655006604 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 317655006605 Helix-turn-helix domains; Region: HTH; cl00088 317655006606 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 317655006607 putative dimerization interface [polypeptide binding]; other site 317655006608 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655006609 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006610 N-terminal plug; other site 317655006611 ligand-binding site [chemical binding]; other site 317655006612 Protein of unknown function, DUF; Region: DUF411; cl01142 317655006613 Domain of unknown function (DUF305); Region: DUF305; cl15795 317655006614 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 317655006615 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 317655006616 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006617 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006618 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006619 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 317655006620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655006621 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 317655006622 DNA binding residues [nucleotide binding] 317655006623 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 317655006624 dimer interface [polypeptide binding]; other site 317655006625 Bacterial Ig-like domain; Region: Big_5; cl01012 317655006626 Copper resistance protein D; Region: CopD; cl00563 317655006627 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 317655006628 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 317655006629 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 317655006630 S-adenosylmethionine binding site [chemical binding]; other site 317655006631 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 317655006632 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 317655006633 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 317655006634 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 317655006635 motif II; other site 317655006636 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655006637 Cytochrome c; Region: Cytochrom_C; cl11414 317655006638 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655006639 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006640 N-terminal plug; other site 317655006641 ligand-binding site [chemical binding]; other site 317655006642 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 317655006643 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 317655006644 DNA binding residues [nucleotide binding] 317655006645 dimer interface [polypeptide binding]; other site 317655006646 mercury binding site [ion binding]; other site 317655006647 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655006648 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 317655006649 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006650 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006651 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 317655006652 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655006653 DNA binding residues [nucleotide binding] 317655006654 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 317655006655 dimer interface [polypeptide binding]; other site 317655006656 putative metal binding site [ion binding]; other site 317655006657 Cation efflux family; Region: Cation_efflux; cl00316 317655006658 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 317655006659 Outer membrane efflux protein; Region: OEP; pfam02321 317655006660 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 317655006661 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 317655006662 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006663 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006664 Helix-turn-helix domains; Region: HTH; cl00088 317655006665 Helix-turn-helix domains; Region: HTH; cl00088 317655006666 Integrase core domain; Region: rve; cl01316 317655006667 Integrase core domain; Region: rve_3; cl15866 317655006668 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 317655006669 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 317655006670 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 317655006671 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655006672 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 317655006673 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655006674 NAD(P) binding site [chemical binding]; other site 317655006675 catalytic residues [active] 317655006676 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 317655006677 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 317655006678 NAD binding site [chemical binding]; other site 317655006679 substrate binding site [chemical binding]; other site 317655006680 catalytic Zn binding site [ion binding]; other site 317655006681 tetramer interface [polypeptide binding]; other site 317655006682 structural Zn binding site [ion binding]; other site 317655006683 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 317655006684 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006685 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006686 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 317655006687 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 317655006688 PAS domain; Region: PAS_9; pfam13426 317655006689 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 317655006690 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 317655006691 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 317655006692 putative active site [active] 317655006693 heme pocket [chemical binding]; other site 317655006694 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 317655006695 dimer interface [polypeptide binding]; other site 317655006696 phosphorylation site [posttranslational modification] 317655006697 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 317655006698 ATP binding site [chemical binding]; other site 317655006699 Mg2+ binding site [ion binding]; other site 317655006700 G-X-G motif; other site 317655006701 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 317655006702 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 317655006703 active site 317655006704 phosphorylation site [posttranslational modification] 317655006705 intermolecular recognition site; other site 317655006706 dimerization interface [polypeptide binding]; other site 317655006707 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 317655006708 DNA binding residues [nucleotide binding] 317655006709 dimerization interface [polypeptide binding]; other site 317655006710 Response regulator receiver domain; Region: Response_reg; pfam00072 317655006711 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 317655006712 active site 317655006713 phosphorylation site [posttranslational modification] 317655006714 intermolecular recognition site; other site 317655006715 dimerization interface [polypeptide binding]; other site 317655006716 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 317655006717 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 317655006718 dimerization interface [polypeptide binding]; other site 317655006719 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 317655006720 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 317655006721 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 317655006722 FAD binding pocket [chemical binding]; other site 317655006723 FAD binding motif [chemical binding]; other site 317655006724 phosphate binding motif [ion binding]; other site 317655006725 beta-alpha-beta structure motif; other site 317655006726 NAD binding pocket [chemical binding]; other site 317655006727 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 317655006728 catalytic loop [active] 317655006729 iron binding site [ion binding]; other site 317655006730 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 317655006731 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 317655006732 DNA binding residues [nucleotide binding] 317655006733 dimer interface [polypeptide binding]; other site 317655006734 metal binding site [ion binding]; metal-binding site 317655006735 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 317655006736 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 317655006737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655006738 active site 317655006739 thymidine phosphorylase; Provisional; Region: PRK04350 317655006740 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 317655006741 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 317655006742 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 317655006743 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 317655006744 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655006745 Beta-Casp domain; Region: Beta-Casp; cl12567 317655006746 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 317655006747 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 317655006748 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 317655006749 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 317655006750 VirB7 interaction site; other site 317655006751 VirB8 protein; Region: VirB8; cl01500 317655006752 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 317655006753 conjugal transfer protein TrbL; Provisional; Region: PRK13875 317655006754 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 317655006755 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 317655006756 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 317655006757 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006758 Walker A/P-loop; other site 317655006759 ATP binding site [chemical binding]; other site 317655006760 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 317655006761 TrbC/VIRB2 family; Region: TrbC; cl01583 317655006762 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 317655006763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006764 Walker A motif; other site 317655006765 ATP binding site [chemical binding]; other site 317655006766 Walker B motif; other site 317655006767 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 317655006768 DNA binding residues [nucleotide binding] 317655006769 dimerization interface [polypeptide binding]; other site 317655006770 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 317655006771 MPN+ (JAMM) motif; other site 317655006772 Zinc-binding site [ion binding]; other site 317655006773 Helix-turn-helix domains; Region: HTH; cl00088 317655006774 TrwC relaxase; Region: TrwC; pfam08751 317655006775 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 317655006776 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 317655006777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006778 Family description; Region: UvrD_C_2; cl15862 317655006779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006780 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 317655006781 Walker A motif; other site 317655006782 ATP binding site [chemical binding]; other site 317655006783 Walker B motif; other site 317655006784 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 catalyze...; Region: LT_GEWL; cd00254 317655006785 N-acetyl-D-glucosamine binding site [chemical binding]; other site 317655006786 catalytic residue [active] 317655006787 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; cl10465 317655006788 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 317655006789 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 317655006790 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 317655006791 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 317655006792 Protein of unknown function (DUF736); Region: DUF736; cl02303 317655006793 Protein of unknown function (DUF736); Region: DUF736; cl02303 317655006794 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655006795 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655006796 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655006797 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006798 N-terminal plug; other site 317655006799 ligand-binding site [chemical binding]; other site 317655006800 Transcriptional regulators [Transcription]; Region: GntR; COG1802 317655006801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655006802 DNA-binding site [nucleotide binding]; DNA binding site 317655006803 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655006804 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655006805 DNA binding residues [nucleotide binding] 317655006806 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 317655006807 dimer interface [polypeptide binding]; other site 317655006808 putative metal binding site [ion binding]; other site 317655006809 MerT mercuric transport protein; Region: MerT; cl03578 317655006810 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 317655006811 metal-binding site [ion binding] 317655006812 mercuric reductase; Region: MerA; TIGR02053 317655006813 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655006814 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655006815 Abi-like protein; Region: Abi_2; cl01988 317655006816 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 317655006817 active site 317655006818 NTP binding site [chemical binding]; other site 317655006819 metal binding triad [ion binding]; metal-binding site 317655006820 antibiotic binding site [chemical binding]; other site 317655006821 HEPN domain; Region: HEPN; cl00824 317655006822 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 317655006823 hypothetical protein; Validated; Region: PRK07078 317655006824 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 317655006825 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 317655006826 ParB-like nuclease domain; Region: ParBc; cl02129 317655006827 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 317655006828 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 317655006829 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 317655006830 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 317655006831 Autoinducer binding domain; Region: Autoind_bind; pfam03472 317655006832 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 317655006833 DNA binding residues [nucleotide binding] 317655006834 dimerization interface [polypeptide binding]; other site 317655006835 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655006836 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655006837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655006838 DNA-binding site [nucleotide binding]; DNA binding site 317655006839 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 317655006840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655006841 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 317655006842 DNA binding residues [nucleotide binding] 317655006843 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 317655006844 FecR protein; Region: FecR; pfam04773 317655006845 Secretin and TonB N terminus short domain; Region: STN; cl06624 317655006846 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006847 N-terminal plug; other site 317655006848 ligand-binding site [chemical binding]; other site 317655006849 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 317655006850 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; cl12031 317655006851 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 317655006852 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 317655006853 Ligand Binding Site [chemical binding]; other site 317655006854 Molecular Tunnel; other site 317655006855 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 317655006856 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 317655006857 active site 317655006858 DNA binding site [nucleotide binding] 317655006859 Int/Topo IB signature motif; other site 317655006860 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655006861 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 317655006862 Membrane transport protein; Region: Mem_trans; cl09117 317655006863 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 317655006864 ArsC family; Region: ArsC; pfam03960 317655006865 catalytic residues [active] 317655006866 Low molecular weight phosphatase family; Region: LMWPc; cd00115 317655006867 active site 317655006868 Helix-turn-helix domains; Region: HTH; cl00088 317655006869 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 317655006870 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 317655006871 DNA binding residues [nucleotide binding] 317655006872 dimer interface [polypeptide binding]; other site 317655006873 copper binding site [ion binding]; other site 317655006874 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 317655006875 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 317655006876 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 317655006877 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 317655006878 motif II; other site 317655006879 Protein of unknown function, DUF; Region: DUF411; cl01142 317655006880 Outer membrane efflux protein; Region: OEP; pfam02321 317655006881 Outer membrane efflux protein; Region: OEP; pfam02321 317655006882 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 317655006883 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006884 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 317655006885 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006886 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 317655006887 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 317655006888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655006889 NAD(P) binding site [chemical binding]; other site 317655006890 active site 317655006891 Vitamin K epoxide reductase family; Region: VKOR; cl01729 317655006892 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655006893 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655006894 DNA binding residues [nucleotide binding] 317655006895 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 317655006896 dimer interface [polypeptide binding]; other site 317655006897 putative metal binding site [ion binding]; other site 317655006898 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 317655006899 S-adenosylmethionine binding site [chemical binding]; other site 317655006900 Cation efflux family; Region: Cation_efflux; cl00316 317655006901 Cytochrome c; Region: Cytochrom_C; cl11414 317655006902 Iron permease FTR1 family; Region: FTR1; cl00475 317655006903 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655006904 DNA binding residues [nucleotide binding] 317655006905 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 317655006906 dimer interface [polypeptide binding]; other site 317655006907 putative metal binding site [ion binding]; other site 317655006908 MerT mercuric transport protein; Region: MerT; cl03578 317655006909 Outer membrane efflux protein; Region: OEP; pfam02321 317655006910 Outer membrane efflux protein; Region: OEP; pfam02321 317655006911 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 317655006912 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006913 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006914 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 317655006915 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655006916 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 317655006917 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655006918 DNA binding residues [nucleotide binding] 317655006919 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 317655006920 dimer interface [polypeptide binding]; other site 317655006921 putative metal binding site [ion binding]; other site 317655006922 Cation efflux family; Region: Cation_efflux; cl00316 317655006923 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 317655006924 Ligand Binding Site [chemical binding]; other site 317655006925 Cation efflux family; Region: Cation_efflux; cl00316 317655006926 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 317655006927 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 317655006928 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655006929 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 317655006930 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 317655006931 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 317655006932 putative hydrophobic ligand binding site [chemical binding]; other site 317655006933 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 317655006934 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 317655006935 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655006936 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 317655006937 Cation efflux family; Region: Cation_efflux; cl00316 317655006938 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 317655006939 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 317655006940 putative hydrophobic ligand binding site [chemical binding]; other site 317655006941 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 317655006942 Autoinducer binding domain; Region: Autoind_bind; pfam03472 317655006943 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 317655006944 DNA binding residues [nucleotide binding] 317655006945 dimerization interface [polypeptide binding]; other site 317655006946 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655006947 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655006948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 317655006949 DNA-binding site [nucleotide binding]; DNA binding site 317655006950 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 317655006951 putative active site [active] 317655006952 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 317655006953 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 317655006954 active site 317655006955 NTP binding site [chemical binding]; other site 317655006956 metal binding triad [ion binding]; metal-binding site 317655006957 antibiotic binding site [chemical binding]; other site 317655006958 HEPN domain; Region: HEPN; cl00824 317655006959 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 317655006960 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 317655006961 oligomeric interface; other site 317655006962 putative active site [active] 317655006963 homodimer interface [polypeptide binding]; other site 317655006964 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655006965 RNA polymerase factor sigma-70; Validated; Region: PRK09047 317655006966 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 317655006967 DNA binding residues [nucleotide binding] 317655006968 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 317655006969 FecR protein; Region: FecR; pfam04773 317655006970 Secretin and TonB N terminus short domain; Region: STN; cl06624 317655006971 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655006972 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655006973 N-terminal plug; other site 317655006974 ligand-binding site [chemical binding]; other site 317655006975 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 317655006976 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 317655006977 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; cl12031 317655006978 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 317655006979 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 317655006980 Ligand Binding Site [chemical binding]; other site 317655006981 Molecular Tunnel; other site 317655006982 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 317655006983 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 317655006984 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 317655006985 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 317655006986 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 317655006987 VirB7 interaction site; other site 317655006988 VirB8 protein; Region: VirB8; cl01500 317655006989 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 317655006990 conjugal transfer protein TrbL; Provisional; Region: PRK13875 317655006991 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 317655006992 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 317655006993 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 317655006994 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 317655006995 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 317655006996 TrbC/VIRB2 family; Region: TrbC; cl01583 317655006997 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 317655006998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655006999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007000 Walker A motif; other site 317655007001 ATP binding site [chemical binding]; other site 317655007002 Walker B motif; other site 317655007003 Fic family protein [Function unknown]; Region: COG3177 317655007004 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 317655007005 Fic/DOC family; Region: Fic; cl00960 317655007006 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 317655007007 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 317655007008 Walker A motif; other site 317655007009 ATP binding site [chemical binding]; other site 317655007010 Walker B motif; other site 317655007011 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 317655007012 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 317655007013 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 catalyze...; Region: LT_GEWL; cd00254 317655007014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 317655007015 catalytic residue [active] 317655007016 Protein of unknown function (DUF736); Region: DUF736; cl02303 317655007017 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; cl10465 317655007018 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 317655007019 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 317655007020 Replication initiator protein A; Region: RPA; cl02339 317655007021 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 317655007022 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 317655007023 Protein of unknown function (DUF736); Region: DUF736; cl02303 317655007024 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 317655007025 IHF dimer interface [polypeptide binding]; other site 317655007026 IHF - DNA interface [nucleotide binding]; other site 317655007027 Protein of unknown function (DUF736); Region: DUF736; cl02303 317655007028 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 317655007029 putative active site [active] 317655007030 catalytic site [active] 317655007031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007032 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 317655007033 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 317655007034 ATP-binding site [chemical binding]; other site 317655007035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007036 AAA-like domain; Region: AAA_10; pfam12846 317655007037 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 317655007038 ATP binding site [chemical binding]; other site 317655007039 putative Mg++ binding site [ion binding]; other site 317655007040 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 317655007041 nucleotide binding region [chemical binding]; other site 317655007042 ATP-binding site [chemical binding]; other site 317655007043 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 317655007044 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 317655007045 ATP binding site [chemical binding]; other site 317655007046 putative Mg++ binding site [ion binding]; other site 317655007047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007048 ATP-dependent helicase HepA; Validated; Region: PRK04914 317655007049 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 317655007050 Ligand Binding Site [chemical binding]; other site 317655007051 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 317655007052 active site 317655007053 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 317655007054 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 317655007055 FeS/SAM binding site; other site 317655007056 DNA-sulfur modification-associated; Region: DndB; cl14002 317655007057 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 317655007058 DNA-sulfur modification-associated; Region: DndB; cl14002 317655007059 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 317655007060 hypothetical protein; Validated; Region: PRK07078 317655007061 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 317655007062 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 317655007063 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; cl16911 317655007064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007066 ParB-like nuclease domain; Region: ParBc; cl02129 317655007067 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 317655007068 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 317655007069 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 317655007070 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 317655007071 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 317655007072 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 317655007073 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 317655007074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007075 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 317655007076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007077 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 317655007078 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 317655007079 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 317655007080 putative catalytic site [active] 317655007081 putative phosphate binding site [ion binding]; other site 317655007082 active site 317655007083 metal binding site A [ion binding]; metal-binding site 317655007084 DNA binding site [nucleotide binding] 317655007085 putative AP binding site [nucleotide binding]; other site 317655007086 putative metal binding site B [ion binding]; other site 317655007087 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 317655007088 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 317655007089 dimerization interface [polypeptide binding]; other site 317655007090 active site 317655007091 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 317655007092 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 317655007093 active site 317655007094 phosphorylation site [posttranslational modification] 317655007095 intermolecular recognition site; other site 317655007096 dimerization interface [polypeptide binding]; other site 317655007097 LytTr DNA-binding domain; Region: LytTR; cl04498 317655007098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 317655007099 Histidine kinase; Region: His_kinase; pfam06580 317655007100 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 317655007101 ATP binding site [chemical binding]; other site 317655007102 Mg2+ binding site [ion binding]; other site 317655007103 G-X-G motif; other site 317655007104 Helix-turn-helix domains; Region: HTH; cl00088 317655007105 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 317655007106 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 317655007107 active site 317655007108 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 317655007109 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 317655007110 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 317655007111 synthetase active site [active] 317655007112 NTP binding site [chemical binding]; other site 317655007113 metal binding site [ion binding]; metal-binding site 317655007114 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 317655007115 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 317655007116 DoxX; Region: DoxX; cl00976 317655007117 RNA polymerase sigma factor; Provisional; Region: PRK12539 317655007118 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655007119 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655007120 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 317655007121 mercuric reductase; Region: MerA; TIGR02053 317655007122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655007123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655007124 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 317655007125 metal-binding site [ion binding] 317655007126 MerT mercuric transport protein; Region: MerT; cl03578 317655007127 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 317655007128 DNA binding residues [nucleotide binding] 317655007129 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 317655007130 dimer interface [polypeptide binding]; other site 317655007131 putative metal binding site [ion binding]; other site 317655007132 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 317655007133 FOG: CBS domain [General function prediction only]; Region: COG0517 317655007134 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 317655007135 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655007136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655007137 Helix-turn-helix domains; Region: HTH; cl00088 317655007138 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 317655007139 active site 1 [active] 317655007140 dimer interface [polypeptide binding]; other site 317655007141 hexamer interface [polypeptide binding]; other site 317655007142 active site 2 [active] 317655007143 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 317655007144 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 317655007145 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 317655007146 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 317655007147 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 317655007148 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 317655007149 Nucleoside recognition; Region: Gate; cl00486 317655007150 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 317655007151 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655007152 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655007153 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 317655007154 catalytic residues [active] 317655007155 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 317655007156 mercuric reductase; Validated; Region: PRK06370 317655007157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 317655007158 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 317655007159 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 317655007160 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655007161 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655007162 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 317655007163 MatE; Region: MatE; cl10513 317655007164 FOG: CBS domain [General function prediction only]; Region: COG0517 317655007165 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_10; cd04623 317655007166 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 317655007167 Uncharacterized conserved protein [Function unknown]; Region: COG5316 317655007168 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 317655007169 Uncharacterized conserved protein [Function unknown]; Region: COG5316 317655007170 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 317655007171 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 317655007172 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 317655007173 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 317655007174 S-adenosylmethionine binding site [chemical binding]; other site 317655007175 peptide chain release factor 1; Validated; Region: prfA; PRK00591 317655007176 RF-1 domain; Region: RF-1; cl02875 317655007177 RF-1 domain; Region: RF-1; cl02875 317655007178 histidyl-tRNA synthetase; Region: hisS; TIGR00442 317655007179 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 ATP-dependent...; Region: HisRS-like_core; cd00773 317655007180 dimer interface [polypeptide binding]; other site 317655007181 motif 1; other site 317655007182 active site 317655007183 motif 2; other site 317655007184 motif 3; other site 317655007185 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 317655007186 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 317655007187 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 317655007188 protein binding site [polypeptide binding]; other site 317655007189 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 317655007190 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 317655007191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007192 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 317655007193 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 317655007194 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 317655007195 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 317655007196 oligomeric interface; other site 317655007197 putative active site [active] 317655007198 homodimer interface [polypeptide binding]; other site 317655007199 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 317655007200 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 317655007201 Helix-turn-helix domains; Region: HTH; cl00088 317655007202 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 317655007203 dimerization interface [polypeptide binding]; other site 317655007204 substrate binding pocket [chemical binding]; other site 317655007205 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655007206 ligand binding site [chemical binding]; other site 317655007207 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 317655007208 RimM N-terminal domain; Region: RimM; pfam01782 317655007209 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 317655007210 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 317655007211 signal recognition particle protein; Provisional; Region: PRK10867 317655007212 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 317655007213 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 317655007214 P loop; other site 317655007215 GTP binding site [chemical binding]; other site 317655007216 Signal peptide binding domain; Region: SRP_SPB; pfam02978 317655007217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 317655007218 metal binding site [ion binding]; metal-binding site 317655007219 active site 317655007220 I-site; other site 317655007221 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 317655007222 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 317655007223 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 317655007224 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 317655007225 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 317655007226 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 317655007227 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 317655007228 FeS/SAM binding site; other site 317655007229 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 317655007230 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 317655007231 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 317655007232 P loop; other site 317655007233 GTP binding site [chemical binding]; other site 317655007234 Intracellular septation protein A; Region: IspA; cl01098 317655007235 Predicted membrane protein [Function unknown]; Region: COG3748 317655007236 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 317655007237 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 317655007238 trimer interface [polypeptide binding]; other site 317655007239 putative metal binding site [ion binding]; other site 317655007240 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; cl16911 317655007241 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 317655007242 dimer interface [polypeptide binding]; other site 317655007243 active site 317655007244 aspartate-rich active site metal binding site; other site 317655007245 allosteric magnesium binding site [ion binding]; other site 317655007246 Schiff base residues; other site 317655007247 Peptidase family M23; Region: Peptidase_M23; pfam01551 317655007248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007249 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 317655007250 nucleotide binding region [chemical binding]; other site 317655007251 ATP-binding site [chemical binding]; other site 317655007252 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 317655007253 RNA binding surface [nucleotide binding]; other site 317655007254 Ferredoxin [Energy production and conversion]; Region: COG1146 317655007255 4Fe-4S binding domain; Region: Fer4; cl02805 317655007256 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 317655007257 Clp protease; Region: CLP_protease; pfam00574 317655007258 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 317655007259 oligomer interface [polypeptide binding]; other site 317655007260 active site residues [active] 317655007261 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 317655007262 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 317655007263 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 317655007264 Walker A motif; other site 317655007265 ATP binding site [chemical binding]; other site 317655007266 Walker B motif; other site 317655007267 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 317655007268 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655007269 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655007270 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 317655007271 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 317655007272 minor groove reading motif; other site 317655007273 helix-hairpin-helix signature motif; other site 317655007274 substrate binding pocket [chemical binding]; other site 317655007275 active site 317655007276 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 317655007277 dihydrodipicolinate reductase; Provisional; Region: PRK00048 317655007278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007279 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 317655007280 NAD-dependent deacetylase; Provisional; Region: PRK00481 317655007281 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 317655007282 NAD+ binding site [chemical binding]; other site 317655007283 substrate binding site [chemical binding]; other site 317655007284 Zn binding site [ion binding]; other site 317655007285 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 317655007286 nucleoside/Zn binding site; other site 317655007287 dimer interface [polypeptide binding]; other site 317655007288 catalytic motif [active] 317655007289 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 317655007290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 317655007291 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 317655007292 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 317655007293 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 317655007294 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; cl16911 317655007295 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 317655007296 Catalytic dyad [active] 317655007297 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 317655007298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007300 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 317655007301 catalytic triad [active] 317655007302 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 317655007303 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 317655007304 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 317655007305 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655007306 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655007307 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 317655007308 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 317655007309 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 317655007310 ATP binding site [chemical binding]; other site 317655007311 Walker A motif; other site 317655007312 hexamer interface [polypeptide binding]; other site 317655007313 Walker B motif; other site 317655007314 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655007315 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 317655007316 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 317655007317 binding surface 317655007318 Tetratricopeptide repeat; Region: TPR_16; pfam13432 317655007319 TPR motif; other site 317655007320 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 317655007321 Uncharacterized conserved protein [Function unknown]; Region: COG5276 317655007322 LVIVD repeat; Region: LVIVD; pfam08309 317655007323 Domain of unknown function (DUF336); Region: DUF336; cl01249 317655007324 Domain of unknown function (DUF336); Region: DUF336; cl01249 317655007325 Domain of unknown function (DUF336); Region: DUF336; cl01249 317655007326 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 317655007327 glutamate dehydrogenase; Provisional; Region: PRK09414 317655007328 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 317655007329 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 317655007330 NAD(P) binding site [chemical binding]; other site 317655007331 TPR repeat; Region: TPR_11; pfam13414 317655007332 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 317655007333 binding surface 317655007334 TPR motif; other site 317655007335 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 317655007336 Proline dehydrogenase; Region: Pro_dh; cl03282 317655007337 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 317655007338 Glutamate binding site [chemical binding]; other site 317655007339 NAD binding site [chemical binding]; other site 317655007340 catalytic residues [active] 317655007341 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 317655007342 Helix-turn-helix domains; Region: HTH; cl00088 317655007343 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 317655007344 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 317655007345 Major Facilitator Superfamily; Region: MFS_1; pfam07690 317655007346 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; cl11420 317655007347 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 317655007348 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 317655007349 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 317655007350 putative MPT binding site; other site 317655007351 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 317655007352 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 317655007353 putative C-terminal domain interface [polypeptide binding]; other site 317655007354 putative GSH binding site (G-site) [chemical binding]; other site 317655007355 putative dimer interface [polypeptide binding]; other site 317655007356 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 317655007357 dimer interface [polypeptide binding]; other site 317655007358 N-terminal domain interface [polypeptide binding]; other site 317655007359 putative substrate binding pocket (H-site) [chemical binding]; other site 317655007360 DNA Polymerase Y-family; Region: PolY_like; cd03468 317655007361 active site 317655007362 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 317655007363 DNA binding site [nucleotide binding] 317655007364 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 317655007365 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 317655007366 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 317655007367 generic binding surface II; other site 317655007368 generic binding surface I; other site 317655007369 Helix-turn-helix domain; Region: HTH_18; pfam12833 317655007370 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 317655007371 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 317655007372 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 317655007373 dimer interface [polypeptide binding]; other site 317655007374 motif 1; other site 317655007375 active site 317655007376 motif 2; other site 317655007377 motif 3; other site 317655007378 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 317655007379 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 317655007380 putative tRNA-binding site [nucleotide binding]; other site 317655007381 B3/4 domain; Region: B3_4; cl11458 317655007382 tRNA synthetase B5 domain; Region: B5; cl08394 317655007383 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 317655007384 dimer interface [polypeptide binding]; other site 317655007385 motif 1; other site 317655007386 motif 3; other site 317655007387 motif 2; other site 317655007388 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 317655007389 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 317655007390 Sulfate transporter family; Region: Sulfate_transp; cl15842 317655007391 Sulfate transporter family; Region: Sulfate_transp; cl15842 317655007392 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 317655007393 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 317655007394 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 317655007395 Ligand Binding Site [chemical binding]; other site 317655007396 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 317655007397 PII uridylyl-transferase; Provisional; Region: PRK05092 317655007398 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 317655007399 metal binding triad; other site 317655007400 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 317655007401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 317655007402 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 317655007403 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 317655007404 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655007405 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 317655007406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655007407 Coenzyme A binding pocket [chemical binding]; other site 317655007408 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 317655007409 MutS domain I; Region: MutS_I; pfam01624 317655007410 MutS domain II; Region: MutS_II; pfam05188 317655007411 MutS family domain IV; Region: MutS_IV; pfam05190 317655007412 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 317655007413 Walker A/P-loop; other site 317655007414 ATP binding site [chemical binding]; other site 317655007415 Q-loop/lid; other site 317655007416 ABC transporter signature motif; other site 317655007417 Walker B; other site 317655007418 D-loop; other site 317655007419 H-loop/switch region; other site 317655007420 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 317655007421 Malic enzyme, N-terminal domain; Region: malic; pfam00390 317655007422 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 317655007423 putative NAD(P) binding site [chemical binding]; other site 317655007424 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 317655007425 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 317655007426 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 317655007427 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 317655007428 adenylate kinase; Reviewed; Region: adk; PRK00279 317655007429 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 317655007430 AMP-binding site [chemical binding]; other site 317655007431 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 317655007432 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 317655007433 SecY translocase; Region: SecY; pfam00344 317655007434 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 317655007435 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 317655007436 23S rRNA binding site [nucleotide binding]; other site 317655007437 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 317655007438 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 317655007439 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 317655007440 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 317655007441 5S rRNA interface [nucleotide binding]; other site 317655007442 23S rRNA interface [nucleotide binding]; other site 317655007443 L5 interface [polypeptide binding]; other site 317655007444 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 317655007445 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 317655007446 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 317655007447 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 317655007448 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 317655007449 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 317655007450 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 317655007451 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 317655007452 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 317655007453 KOW motif; Region: KOW; cl00354 317655007454 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 317655007455 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 317655007456 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 317655007457 putative translocon interaction site; other site 317655007458 signal recognition particle (SRP54) interaction site; other site 317655007459 L23 interface [polypeptide binding]; other site 317655007460 trigger factor interaction site; other site 317655007461 23S rRNA interface [nucleotide binding]; other site 317655007462 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 317655007463 23S rRNA interface [nucleotide binding]; other site 317655007464 5S rRNA interface [nucleotide binding]; other site 317655007465 putative antibiotic binding site [chemical binding]; other site 317655007466 L25 interface [polypeptide binding]; other site 317655007467 L27 interface [polypeptide binding]; other site 317655007468 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 317655007469 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 317655007470 G-X-X-G motif; other site 317655007471 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 317655007472 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 317655007473 putative translocon binding site; other site 317655007474 protein-rRNA interface [nucleotide binding]; other site 317655007475 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 317655007476 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 317655007477 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 317655007478 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 317655007479 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 317655007480 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 317655007481 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 317655007482 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 317655007483 elongation factor Tu; Reviewed; Region: PRK00049 317655007484 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 317655007485 G1 box; other site 317655007486 GEF interaction site [polypeptide binding]; other site 317655007487 GTP/Mg2+ binding site [chemical binding]; other site 317655007488 Switch I region; other site 317655007489 G2 box; other site 317655007490 G3 box; other site 317655007491 Switch II region; other site 317655007492 G4 box; other site 317655007493 G5 box; other site 317655007494 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 317655007495 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 317655007496 Antibiotic Binding Site [chemical binding]; other site 317655007497 elongation factor G; Reviewed; Region: PRK00007 317655007498 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 317655007499 G1 box; other site 317655007500 putative GEF interaction site [polypeptide binding]; other site 317655007501 GTP/Mg2+ binding site [chemical binding]; other site 317655007502 Switch I region; other site 317655007503 G2 box; other site 317655007504 G3 box; other site 317655007505 Switch II region; other site 317655007506 G4 box; other site 317655007507 G5 box; other site 317655007508 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 317655007509 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 317655007510 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 317655007511 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 317655007512 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 317655007513 S17 interaction site [polypeptide binding]; other site 317655007514 S8 interaction site; other site 317655007515 16S rRNA interaction site [nucleotide binding]; other site 317655007516 streptomycin interaction site [chemical binding]; other site 317655007517 23S rRNA interaction site [nucleotide binding]; other site 317655007518 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 317655007519 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 317655007520 catalytic nucleophile [active] 317655007521 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 317655007522 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 317655007523 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 317655007524 active site 317655007525 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 317655007526 catalytic triad [active] 317655007527 putative active site [active] 317655007528 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 317655007529 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 317655007530 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 317655007531 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 317655007532 trimer interface [polypeptide binding]; other site 317655007533 active site 317655007534 substrate binding site [chemical binding]; other site 317655007535 CoA binding site [chemical binding]; other site 317655007536 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 317655007537 catalytic core [active] 317655007538 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 317655007539 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 317655007540 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 317655007541 putative dimer interface [polypeptide binding]; other site 317655007542 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655007543 Coenzyme A binding pocket [chemical binding]; other site 317655007544 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 317655007545 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 317655007546 active site 317655007547 Zn binding site [ion binding]; other site 317655007548 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 317655007549 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 317655007550 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 317655007551 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 317655007552 active site 317655007553 phosphorylation site [posttranslational modification] 317655007554 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 A site; Region: RaiA; cd00552 317655007555 30S subunit binding site; other site 317655007556 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 317655007557 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 317655007558 active site 317655007559 catalytic site [active] 317655007560 substrate binding site [chemical binding]; other site 317655007561 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 317655007562 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 317655007563 CoA-binding site [chemical binding]; other site 317655007564 ATP-binding [chemical binding]; other site 317655007565 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 317655007566 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 317655007567 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 317655007568 shikimate binding site; other site 317655007569 NAD(P) binding site [chemical binding]; other site 317655007570 Maf-like protein; Region: Maf; pfam02545 317655007571 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 317655007572 active site 317655007573 dimer interface [polypeptide binding]; other site 317655007574 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 317655007575 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 317655007576 substrate binding site [chemical binding]; other site 317655007577 active site 317655007578 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 317655007579 transcription termination factor Rho; Provisional; Region: rho; PRK09376 317655007580 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 317655007581 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 317655007582 RNA binding site [nucleotide binding]; other site 317655007583 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 317655007584 multimer interface [polypeptide binding]; other site 317655007585 Walker A motif; other site 317655007586 ATP binding site [chemical binding]; other site 317655007587 Walker B motif; other site 317655007588 Integral membrane protein TerC family; Region: TerC; cl10468 317655007589 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 317655007590 inhibitor binding site; inhibition site 317655007591 catalytic motif [active] 317655007592 Catalytic residue [active] 317655007593 Active site flap [active] 317655007594 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 317655007595 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 317655007596 Dienelactone hydrolase family; Region: DLH; pfam01738 317655007597 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 317655007598 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 317655007599 trmE is a tRNA modification GTPase; Region: trmE; cd04164 317655007600 G1 box; other site 317655007601 GTP/Mg2+ binding site [chemical binding]; other site 317655007602 Switch I region; other site 317655007603 G2 box; other site 317655007604 Switch II region; other site 317655007605 G3 box; other site 317655007606 G4 box; other site 317655007607 G5 box; other site 317655007608 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 317655007609 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 317655007610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007611 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 317655007612 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; cl16911 317655007613 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 317655007614 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 317655007615 P-loop; other site 317655007616 Magnesium ion binding site [ion binding]; other site 317655007617 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 317655007618 Magnesium ion binding site [ion binding]; other site 317655007619 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 317655007620 ParB-like nuclease domain; Region: ParBc; cl02129 317655007621 KorB domain; Region: KorB; pfam08535 317655007622 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 317655007623 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 317655007624 hypothetical protein; Provisional; Region: PRK07208 317655007625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007626 GtrA-like protein; Region: GtrA; cl00971 317655007627 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 317655007628 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 317655007629 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 317655007630 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 317655007631 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 317655007632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007633 Walker A/P-loop; other site 317655007634 ATP binding site [chemical binding]; other site 317655007635 Q-loop/lid; other site 317655007636 ABC transporter signature motif; other site 317655007637 Walker B; other site 317655007638 D-loop; other site 317655007639 H-loop/switch region; other site 317655007640 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 317655007641 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 317655007642 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 317655007643 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 317655007644 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 317655007645 substrate binding site [chemical binding]; other site 317655007646 ATP binding site [chemical binding]; other site 317655007647 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 317655007648 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 317655007649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007650 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 317655007651 UGMP family protein; Validated; Region: PRK09604 317655007652 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 317655007653 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 317655007654 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; cl03189 317655007655 domain interfaces; other site 317655007656 active site 317655007657 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 317655007658 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 317655007659 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 317655007660 acyl-coenzyme A oxidase; Region: PLN02526 317655007661 FAD binding site [chemical binding]; other site 317655007662 substrate binding pocket [chemical binding]; other site 317655007663 catalytic base [active] 317655007664 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655007665 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655007666 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 317655007667 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655007668 N-terminal plug; other site 317655007669 ligand-binding site [chemical binding]; other site 317655007670 Helix-turn-helix domains; Region: HTH; cl00088 317655007671 WHG domain; Region: WHG; pfam13305 317655007672 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 317655007673 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 317655007674 S-adenosylmethionine binding site [chemical binding]; other site 317655007675 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; cl12031 317655007676 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 317655007677 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 317655007678 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 317655007679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655007680 homodimer interface [polypeptide binding]; other site 317655007681 catalytic residue [active] 317655007682 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 317655007683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655007684 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 317655007685 putative acyl-acceptor binding pocket; other site 317655007686 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 317655007687 putative active site [active] 317655007688 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 317655007689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007690 Walker A/P-loop; other site 317655007691 ATP binding site [chemical binding]; other site 317655007692 Q-loop/lid; other site 317655007693 ABC transporter signature motif; other site 317655007694 Walker B; other site 317655007695 D-loop; other site 317655007696 H-loop/switch region; other site 317655007697 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 317655007698 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 317655007699 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 317655007700 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 317655007701 CoA-transferase family III; Region: CoA_transf_3; pfam02515 317655007702 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 317655007703 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 317655007704 dimer interface [polypeptide binding]; other site 317655007705 active site 317655007706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655007707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655007708 active site 317655007709 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 317655007710 DNA binding residues [nucleotide binding] 317655007711 dimerization interface [polypeptide binding]; other site 317655007712 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 317655007713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655007714 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 317655007715 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 317655007716 FHIPEP family; Region: FHIPEP; pfam00771 317655007717 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 317655007718 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 317655007719 SAF domain; Region: SAF; cl00555 317655007720 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 317655007721 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 317655007722 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 317655007723 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 317655007724 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 317655007725 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 317655007726 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 317655007727 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 317655007728 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 317655007729 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 317655007730 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 317655007731 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 317655007732 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 317655007733 Flagellar L-ring protein; Region: FlgH; cl00905 317655007734 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 317655007735 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 317655007736 Rod binding protein; Region: Rod-binding; cl01626 317655007737 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 317655007738 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 317655007739 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 317655007740 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 317655007741 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 317655007742 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 317655007743 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 317655007744 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 317655007745 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 317655007746 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655007747 ligand binding site [chemical binding]; other site 317655007748 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 317655007749 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 317655007750 Walker A motif; other site 317655007751 ATP binding site [chemical binding]; other site 317655007752 Walker B motif; other site 317655007753 arginine finger; other site 317655007754 Flagellar protein FliS; Region: FliS; cl00654 317655007755 flagellar capping protein; Reviewed; Region: fliD; PRK08032 317655007756 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 317655007757 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 317655007758 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 317655007759 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 317655007760 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 317655007761 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 317655007762 FliP family; Region: FliP; cl00593 317655007763 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 317655007764 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 317655007765 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 317655007766 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 317655007767 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 317655007768 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 317655007769 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 317655007770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655007771 Walker A motif; other site 317655007772 ATP binding site [chemical binding]; other site 317655007773 Walker B motif; other site 317655007774 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 317655007775 FliG C-terminal domain; Region: FliG_C; pfam01706 317655007776 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 317655007777 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 317655007778 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 317655007779 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 317655007780 flagellin; Provisional; Region: PRK12802 317655007781 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 317655007782 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 317655007783 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 317655007784 23S rRNA binding site [nucleotide binding]; other site 317655007785 L21 binding site [polypeptide binding]; other site 317655007786 L13 binding site [polypeptide binding]; other site 317655007787 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 317655007788 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 317655007789 active site 317655007790 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 317655007791 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 317655007792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 317655007793 active site 317655007794 NAD synthetase; Provisional; Region: PRK13981 317655007795 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 317655007796 multimer interface [polypeptide binding]; other site 317655007797 active site 317655007798 catalytic triad [active] 317655007799 protein interface 1 [polypeptide binding]; other site 317655007800 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 317655007801 homodimer interface [polypeptide binding]; other site 317655007802 NAD binding pocket [chemical binding]; other site 317655007803 ATP binding pocket [chemical binding]; other site 317655007804 Mg binding site [ion binding]; other site 317655007805 active-site loop [active] 317655007806 DoxX; Region: DoxX; cl00976 317655007807 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 317655007808 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655007809 active site 317655007810 HIGH motif; other site 317655007811 nucleotide binding site [chemical binding]; other site 317655007812 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 317655007813 active site 317655007814 KMSKS motif; other site 317655007815 Gram-negative bacterial tonB protein; Region: TonB; cl10048 317655007816 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 317655007817 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 317655007818 Helix-turn-helix domains; Region: HTH; cl00088 317655007819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 317655007820 Coenzyme A binding pocket [chemical binding]; other site 317655007821 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 317655007822 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 317655007823 inhibitor-cofactor binding pocket; inhibition site 317655007824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 317655007825 catalytic residue [active] 317655007826 Cupin domain; Region: Cupin_2; cl09118 317655007827 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 317655007828 aspartate kinase; Validated; Region: PRK09181 317655007829 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 317655007830 putative catalytic residues [active] 317655007831 putative nucleotide binding site [chemical binding]; other site 317655007832 putative aspartate binding site [chemical binding]; other site 317655007833 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 317655007834 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 317655007835 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 317655007836 putative substrate translocation pore; other site 317655007837 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 317655007838 metabolite-proton symporter; Region: 2A0106; TIGR00883 317655007839 putative substrate translocation pore; other site 317655007840 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 317655007841 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 317655007842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 317655007843 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 317655007844 DNA binding residues [nucleotide binding] 317655007845 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 317655007846 active site 317655007847 catalytic triad [active] 317655007848 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 317655007849 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 317655007850 DNA binding residues [nucleotide binding] 317655007851 dimerization interface [polypeptide binding]; other site 317655007852 Acyl transferase domain; Region: Acyl_transf_1; cl08282 317655007853 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 317655007854 tetramer interface [polypeptide binding]; other site 317655007855 TPP-binding site [chemical binding]; other site 317655007856 heterodimer interface [polypeptide binding]; other site 317655007857 phosphorylation loop region [posttranslational modification] 317655007858 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 317655007859 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 317655007860 PYR/PP interface [polypeptide binding]; other site 317655007861 dimer interface [polypeptide binding]; other site 317655007862 TPP binding site [chemical binding]; other site 317655007863 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 317655007864 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 317655007865 MoxR-like ATPases [General function prediction only]; Region: COG0714 317655007866 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 317655007867 Walker A motif; other site 317655007868 ATP binding site [chemical binding]; other site 317655007869 Walker B motif; other site 317655007870 arginine finger; other site 317655007871 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 317655007872 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 317655007873 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 317655007874 metal ion-dependent adhesion site (MIDAS); other site 317655007875 Integral membrane protein DUF95; Region: DUF95; cl00572 317655007876 RDD family; Region: RDD; cl00746 317655007877 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 317655007878 putative FMN binding site [chemical binding]; other site 317655007879 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 317655007880 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 317655007881 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 317655007882 anchoring element; other site 317655007883 dimer interface [polypeptide binding]; other site 317655007884 ATP binding site [chemical binding]; other site 317655007885 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 317655007886 active site 317655007887 putative metal-binding site [ion binding]; other site 317655007888 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 317655007889 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 317655007890 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 317655007891 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 317655007892 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 317655007893 Transglycosylase; Region: Transgly; cl07896 317655007894 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 317655007895 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655007896 Protein of unknown function DUF45; Region: DUF45; cl00636 317655007897 Flagellin N-methylase; Region: FliB; cl00497 317655007898 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 317655007899 Cu(I) binding site [ion binding]; other site 317655007900 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 317655007901 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 317655007902 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 317655007903 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 317655007904 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; cl00522 317655007905 dimerization interface [polypeptide binding]; other site 317655007906 active site 317655007907 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 317655007908 homopentamer interface [polypeptide binding]; other site 317655007909 active site 317655007910 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 317655007911 FMN binding site [chemical binding]; other site 317655007912 active site 317655007913 substrate binding site [chemical binding]; other site 317655007914 catalytic residue [active] 317655007915 Helix-turn-helix domains; Region: HTH; cl00088 317655007916 FeoA domain; Region: FeoA; cl00838 317655007917 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 317655007918 G1 box; other site 317655007919 GTP/Mg2+ binding site [chemical binding]; other site 317655007920 Switch I region; other site 317655007921 G2 box; other site 317655007922 G3 box; other site 317655007923 Switch II region; other site 317655007924 G4 box; other site 317655007925 G5 box; other site 317655007926 Nucleoside recognition; Region: Gate; cl00486 317655007927 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 317655007928 Nucleoside recognition; Region: Gate; cl00486 317655007929 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 317655007930 dimer interface [polypeptide binding]; other site 317655007931 ssDNA binding site [nucleotide binding]; other site 317655007932 tetramer (dimer of dimers) interface [polypeptide binding]; other site 317655007933 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 317655007934 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 317655007935 Lumazine binding domain; Region: Lum_binding; pfam00677 317655007936 Lumazine binding domain; Region: Lum_binding; pfam00677 317655007937 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 317655007938 active site 317655007939 Zn binding site [ion binding]; other site 317655007940 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; cl00161 317655007941 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 317655007942 active site 317655007943 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 317655007944 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 317655007945 active site 317655007946 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 317655007947 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; cl12031 317655007948 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655007949 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 317655007950 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 317655007951 motif II; other site 317655007952 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 317655007953 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 317655007954 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 317655007955 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 317655007956 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 317655007957 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 317655007958 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 317655007959 Walker A/P-loop; other site 317655007960 ATP binding site [chemical binding]; other site 317655007961 Q-loop/lid; other site 317655007962 ABC transporter signature motif; other site 317655007963 Walker B; other site 317655007964 D-loop; other site 317655007965 H-loop/switch region; other site 317655007966 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 317655007967 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 317655007968 active site 317655007969 substrate binding site [chemical binding]; other site 317655007970 metal binding site [ion binding]; metal-binding site 317655007971 ATPase MipZ; Region: MipZ; pfam09140 317655007972 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 317655007973 P-loop; other site 317655007974 Magnesium ion binding site [ion binding]; other site 317655007975 Pantoate-beta-alanine ligase; Region: PanC; cd00560 317655007976 active site 317655007977 ATP-binding site [chemical binding]; other site 317655007978 pantoate-binding site; other site 317655007979 HXXH motif; other site 317655007980 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 317655007981 Sel1 repeat; Region: Sel1; cl02723 317655007982 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 317655007983 Protein of unknown function, DUF482; Region: DUF482; pfam04339 317655007984 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 317655007985 homotrimer interaction site [polypeptide binding]; other site 317655007986 putative active site [active] 317655007987 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 317655007988 Response regulator receiver domain; Region: Response_reg; pfam00072 317655007989 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 317655007990 active site 317655007991 phosphorylation site [posttranslational modification] 317655007992 intermolecular recognition site; other site 317655007993 dimerization interface [polypeptide binding]; other site 317655007994 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655007995 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655007996 active site 317655007997 tetratricopeptide repeat protein; Provisional; Region: PRK11788 317655007998 Cupin domain; Region: Cupin_2; cl09118 317655007999 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 317655008000 Family description; Region: UvrD_C_2; cl15862 317655008001 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 317655008002 DHH family; Region: DHH; pfam01368 317655008003 Predicted membrane protein [Function unknown]; Region: COG3428 317655008004 Bacterial PH domain; Region: DUF304; cl01348 317655008005 Bacterial PH domain; Region: DUF304; cl01348 317655008006 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 317655008007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 317655008008 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 317655008009 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 317655008010 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 317655008011 Lipopolysaccharide-assembly; Region: LptE; cl01125 317655008012 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 317655008013 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 317655008014 HIGH motif; other site 317655008015 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 317655008016 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655008017 active site 317655008018 KMSKS motif; other site 317655008019 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 317655008020 tRNA binding surface [nucleotide binding]; other site 317655008021 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 317655008022 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 317655008023 thiamine phosphate binding site [chemical binding]; other site 317655008024 active site 317655008025 pyrophosphate binding site [ion binding]; other site 317655008026 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 317655008027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655008028 catalytic residue [active] 317655008029 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 317655008030 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 317655008031 ATP binding site [chemical binding]; other site 317655008032 putative Mg++ binding site [ion binding]; other site 317655008033 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 317655008034 nucleotide binding region [chemical binding]; other site 317655008035 ATP-binding site [chemical binding]; other site 317655008036 DEAD/H associated; Region: DEAD_assoc; pfam08494 317655008037 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 317655008038 catalytic motif [active] 317655008039 Catalytic residue [active] 317655008040 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 317655008041 catalytic motif [active] 317655008042 Catalytic residue [active] 317655008043 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 317655008044 active site 317655008045 metal binding site [ion binding]; metal-binding site 317655008046 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655008047 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008048 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008049 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 317655008050 Iron-sulfur protein interface; other site 317655008051 proximal quinone binding site [chemical binding]; other site 317655008052 SdhD (CybS) interface [polypeptide binding]; other site 317655008053 proximal heme binding site [chemical binding]; other site 317655008054 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 317655008055 putative SdhC subunit interface [polypeptide binding]; other site 317655008056 putative proximal heme binding site [chemical binding]; other site 317655008057 putative Iron-sulfur protein interface [polypeptide binding]; other site 317655008058 putative proximal quinone binding site; other site 317655008059 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 317655008060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008061 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 317655008062 Transcriptional regulators [Transcription]; Region: PurR; COG1609 317655008063 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 317655008064 DNA binding site [nucleotide binding] 317655008065 domain linker motif; other site 317655008066 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 317655008067 putative dimerization interface [polypeptide binding]; other site 317655008068 putative ligand binding site [chemical binding]; other site 317655008069 hypothetical protein; Provisional; Region: PRK09273 317655008070 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 317655008071 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 317655008072 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 317655008073 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 317655008074 NADP binding site [chemical binding]; other site 317655008075 homodimer interface [polypeptide binding]; other site 317655008076 active site 317655008077 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 317655008078 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 317655008079 substrate binding site [chemical binding]; other site 317655008080 ATP binding site [chemical binding]; other site 317655008081 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 317655008082 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; cl12031 317655008083 substrate binding pocket [chemical binding]; other site 317655008084 catalytic triad [active] 317655008085 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 317655008086 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; cl12031 317655008087 Cupin domain; Region: Cupin_2; cl09118 317655008088 Pectate lyase; Region: Pec_lyase_C; cl01593 317655008089 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655008090 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008091 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655008092 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 317655008093 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 317655008094 active site 317655008095 SAF domain; Region: SAF; cl00555 317655008096 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 317655008097 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 317655008098 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 317655008099 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 317655008100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 317655008101 putative substrate translocation pore; other site 317655008102 Glucuronate isomerase; Region: UxaC; cl00829 317655008103 D-mannonate oxidoreductase; Provisional; Region: PRK15037 317655008104 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 317655008105 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 317655008106 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655008107 Helix-turn-helix domains; Region: HTH; cl00088 317655008108 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 317655008109 dimerization interface [polypeptide binding]; other site 317655008110 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 317655008111 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 317655008112 tetrameric interface [polypeptide binding]; other site 317655008113 NAD binding site [chemical binding]; other site 317655008114 catalytic residues [active] 317655008115 Potato inhibitor I family; Region: potato_inhibit; cl15459 317655008116 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 317655008117 homotrimer interaction site [polypeptide binding]; other site 317655008118 putative active site [active] 317655008119 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655008120 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 317655008121 substrate binding pocket [chemical binding]; other site 317655008122 FAD binding site [chemical binding]; other site 317655008123 catalytic base [active] 317655008124 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 317655008125 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 317655008126 substrate binding site [chemical binding]; other site 317655008127 oxyanion hole (OAH) forming residues; other site 317655008128 trimer interface [polypeptide binding]; other site 317655008129 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 317655008130 enoyl-CoA hydratase; Provisional; Region: PRK05862 317655008131 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 317655008132 substrate binding site [chemical binding]; other site 317655008133 oxyanion hole (OAH) forming residues; other site 317655008134 trimer interface [polypeptide binding]; other site 317655008135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008136 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 317655008137 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 317655008138 dimer interface [polypeptide binding]; other site 317655008139 substrate binding site [chemical binding]; other site 317655008140 metal binding sites [ion binding]; metal-binding site 317655008141 Mechanosensitive ion channel; Region: MS_channel; pfam00924 317655008142 cystathionine beta-lyase; Provisional; Region: PRK09028 317655008143 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 317655008144 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 317655008145 catalytic residue [active] 317655008146 Chromate transporter; Region: Chromate_transp; pfam02417 317655008147 Chromate transporter; Region: Chromate_transp; pfam02417 317655008148 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 317655008149 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 317655008150 active site residue [active] 317655008151 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 317655008152 active site residue [active] 317655008153 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 317655008154 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 317655008155 active site 317655008156 DDE superfamily endonuclease; Region: DDE_4; cl15789 317655008157 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 317655008158 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 317655008159 substrate binding site [chemical binding]; other site 317655008160 oxyanion hole (OAH) forming residues; other site 317655008161 trimer interface [polypeptide binding]; other site 317655008162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008163 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 317655008164 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 317655008165 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 317655008166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655008167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655008168 classical (c) SDRs; Region: SDR_c; cd05233 317655008169 NAD(P) binding site [chemical binding]; other site 317655008170 active site 317655008171 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655008172 classical (c) SDRs; Region: SDR_c; cd05233 317655008173 NAD(P) binding site [chemical binding]; other site 317655008174 active site 317655008175 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 317655008176 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 317655008177 putative active site [active] 317655008178 putative substrate binding site [chemical binding]; other site 317655008179 ATP binding site [chemical binding]; other site 317655008180 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 317655008181 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 317655008182 NAD binding site [chemical binding]; other site 317655008183 catalytic Zn binding site [ion binding]; other site 317655008184 substrate binding site [chemical binding]; other site 317655008185 structural Zn binding site [ion binding]; other site 317655008186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655008187 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655008188 active site 317655008189 MFS/sugar transport protein; Region: MFS_2; pfam13347 317655008190 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 317655008191 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 317655008192 classical (c) SDRs; Region: SDR_c; cd05233 317655008193 NAD(P) binding site [chemical binding]; other site 317655008194 active site 317655008195 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655008196 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 317655008197 active site 317655008198 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 317655008199 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 317655008200 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 317655008201 active site 317655008202 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 317655008203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008204 NAD(P) binding site [chemical binding]; other site 317655008205 active site 317655008206 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 317655008207 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 317655008208 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 317655008209 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 317655008210 active site 317655008211 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655008212 active site 317655008213 HIGH motif; other site 317655008214 nucleotide binding site [chemical binding]; other site 317655008215 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 317655008216 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 317655008217 TIGR03440 family protein; Region: unchr_TIGR03440 317655008218 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 317655008219 probable methyltransferase; Region: TIGR03438 317655008220 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 317655008221 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 317655008222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 317655008224 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 317655008225 Beta/Gamma crystallin; Region: Crystall; cl02528 317655008226 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 317655008227 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 317655008228 Nucleoside recognition; Region: Gate; cl00486 317655008229 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 317655008230 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 317655008231 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 317655008232 feedback inhibition sensing region; other site 317655008233 homohexameric interface [polypeptide binding]; other site 317655008234 nucleotide binding site [chemical binding]; other site 317655008235 N-acetyl-L-glutamate binding site [chemical binding]; other site 317655008236 YGGT family; Region: YGGT; cl00508 317655008237 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 317655008238 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 317655008239 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 317655008240 homodimer interface [polypeptide binding]; other site 317655008241 NADP binding site [chemical binding]; other site 317655008242 substrate binding site [chemical binding]; other site 317655008243 MarC family integral membrane protein; Region: MarC; cl00919 317655008244 putative outer membrane lipoprotein; Provisional; Region: PRK10510 317655008245 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 317655008246 ligand binding site [chemical binding]; other site 317655008247 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 317655008248 Domain of unknown function DUF21; Region: DUF21; pfam01595 317655008249 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 317655008250 Transporter associated domain; Region: CorC_HlyC; cl08393 317655008251 Uncharacterized conserved protein [Function unknown]; Region: COG3743 317655008252 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 317655008253 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 317655008254 ATP-grasp domain; Region: ATP-grasp_4; cl03087 317655008255 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 317655008256 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 317655008257 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 317655008258 generic binding surface II; other site 317655008259 generic binding surface I; other site 317655008260 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 317655008261 Peptidase family M23; Region: Peptidase_M23; pfam01551 317655008262 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 317655008263 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008264 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008265 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 317655008266 TPR repeat; Region: TPR_11; pfam13414 317655008267 Cupin domain; Region: Cupin_2; cl09118 317655008268 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 317655008269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 317655008270 Helix-turn-helix domains; Region: HTH; cl00088 317655008271 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 317655008272 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 317655008273 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 317655008274 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655008275 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 317655008276 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 317655008277 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 317655008278 putative substrate translocation pore; other site 317655008279 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 317655008280 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 317655008281 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655008282 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655008283 ABC transporter; Region: ABC_tran_2; pfam12848 317655008284 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 317655008285 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 317655008286 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 317655008287 dimer interface [polypeptide binding]; other site 317655008288 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 317655008289 active site 317655008290 Fe binding site [ion binding]; other site 317655008291 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 317655008292 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 317655008293 Zn binding site [ion binding]; other site 317655008294 Bacterial transcriptional activator domain; Region: BTAD; smart01043 317655008295 TolB amino-terminal domain; Region: TolB_N; cl00639 317655008296 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 317655008297 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 317655008298 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 317655008299 purine monophosphate binding site [chemical binding]; other site 317655008300 dimer interface [polypeptide binding]; other site 317655008301 putative catalytic residues [active] 317655008302 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 317655008303 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 317655008304 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 317655008305 Phytase; Region: Phytase; pfam02333 317655008306 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655008307 N-terminal plug; other site 317655008308 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 317655008309 ligand-binding site [chemical binding]; other site 317655008310 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 317655008311 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 317655008312 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 317655008313 substrate binding site [chemical binding]; other site 317655008314 hexamer interface [polypeptide binding]; other site 317655008315 metal binding site [ion binding]; metal-binding site 317655008316 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 317655008317 AAA domain; Region: AAA_28; pfam13521 317655008318 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 317655008319 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 317655008320 active site lid residues [active] 317655008321 substrate binding pocket [chemical binding]; other site 317655008322 catalytic residues [active] 317655008323 substrate-Mg2+ binding site; other site 317655008324 aspartate-rich region 1; other site 317655008325 aspartate-rich region 2; other site 317655008326 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 317655008327 phytoene desaturase; Region: crtI_fam; TIGR02734 317655008328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008330 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 317655008331 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 317655008332 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 317655008333 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 317655008334 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 317655008335 putative active site [active] 317655008336 catalytic triad [active] 317655008337 putative dimer interface [polypeptide binding]; other site 317655008338 S-adenosylmethionine synthetase; Validated; Region: PRK05250 317655008339 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 317655008340 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 317655008341 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 317655008342 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; cl16911 317655008343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 317655008344 Helix-turn-helix domains; Region: HTH; cl00088 317655008345 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 317655008346 putative effector binding pocket; other site 317655008347 putative dimerization interface [polypeptide binding]; other site 317655008348 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 317655008349 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 317655008350 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 317655008351 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 317655008352 dimer interface [polypeptide binding]; other site 317655008353 active site 317655008354 CoA binding pocket [chemical binding]; other site 317655008355 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 317655008356 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 317655008357 substrate binding site [chemical binding]; other site 317655008358 glutamase interaction surface [polypeptide binding]; other site 317655008359 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 317655008360 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 317655008361 catalytic residues [active] 317655008362 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 317655008363 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 317655008364 putative active site [active] 317655008365 oxyanion strand; other site 317655008366 catalytic triad [active] 317655008367 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 317655008368 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 317655008369 putative active site pocket [active] 317655008370 4-fold oligomerization interface [polypeptide binding]; other site 317655008371 metal binding residues [ion binding]; metal-binding site 317655008372 3-fold/trimer interface [polypeptide binding]; other site 317655008373 Stringent starvation protein B; Region: SspB; cl01120 317655008374 fumarate hydratase; Reviewed; Region: fumC; PRK00485 317655008375 Class II fumarases; Region: Fumarase_classII; cd01362 317655008376 active site 317655008377 tetramer interface [polypeptide binding]; other site 317655008378 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 317655008379 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 317655008380 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 317655008381 catalytic site [active] 317655008382 G-X2-G-X-G-K; other site 317655008383 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 317655008384 active site 317655008385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008386 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 317655008387 NAD(P) binding site [chemical binding]; other site 317655008388 active site 317655008389 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 317655008390 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 317655008391 dimer interface [polypeptide binding]; other site 317655008392 active site 317655008393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 317655008394 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 317655008395 active site 317655008396 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 317655008397 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 317655008398 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 317655008399 active site 317655008400 Zn binding site [ion binding]; other site 317655008401 Protein of unknown function (DUF419); Region: DUF419; cl15265 317655008402 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 317655008403 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 317655008404 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 317655008405 ligand binding site [chemical binding]; other site 317655008406 flexible hinge region; other site 317655008407 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 317655008408 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 317655008409 [2Fe-2S] cluster binding site [ion binding]; other site 317655008410 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 317655008411 alpha subunit interface [polypeptide binding]; other site 317655008412 active site 317655008413 substrate binding site [chemical binding]; other site 317655008414 Fe binding site [ion binding]; other site 317655008415 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 317655008416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 317655008417 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 317655008418 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 317655008419 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 317655008420 N-terminal plug; other site 317655008421 ligand-binding site [chemical binding]; other site 317655008422 Tetratricopeptide repeat; Region: TPR_16; pfam13432 317655008423 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 317655008424 TPR motif; other site 317655008425 binding surface 317655008426 Tetratricopeptide repeat; Region: TPR_16; pfam13432 317655008427 Tetratricopeptide repeat; Region: TPR_16; pfam13432 317655008428 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 317655008429 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 317655008430 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 317655008431 Peptidase family M48; Region: Peptidase_M48; cl12018 317655008432 TPR repeat; Region: TPR_11; pfam13414 317655008433 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 317655008434 TPR motif; other site 317655008435 binding surface 317655008436 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 317655008437 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 317655008438 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 317655008439 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 317655008440 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 317655008441 active site 317655008442 metal binding site [ion binding]; metal-binding site 317655008443 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 317655008444 FAD binding domain; Region: FAD_binding_4; pfam01565 317655008445 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 317655008446 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 317655008447 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 317655008448 dimer interface [polypeptide binding]; other site 317655008449 active site 317655008450 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 317655008451 substrate binding site [chemical binding]; other site 317655008452 catalytic residue [active] 317655008453 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 317655008454 Transglycosylase; Region: Transgly; cl07896 317655008455 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 317655008456 peptide chain release factor 2; Validated; Region: prfB; PRK00578 317655008457 RF-1 domain; Region: RF-1; cl02875 317655008458 RF-1 domain; Region: RF-1; cl02875 317655008459 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 317655008460 S-adenosylmethionine binding site [chemical binding]; other site 317655008461 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 317655008462 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 317655008463 ATP binding site [chemical binding]; other site 317655008464 substrate interface [chemical binding]; other site 317655008465 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 317655008466 trimer interface [polypeptide binding]; other site 317655008467 active site 317655008468 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 317655008469 Flavoprotein; Region: Flavoprotein; cl08021 317655008470 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 317655008471 CcdB protein; Region: CcdB; cl03380 317655008472 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 317655008473 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 317655008474 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 317655008475 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 317655008476 active site 317655008477 ATP binding site [chemical binding]; other site 317655008478 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 317655008479 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 317655008480 S-adenosylmethionine binding site [chemical binding]; other site 317655008481 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 317655008482 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 317655008483 DNA binding site [nucleotide binding] 317655008484 catalytic residue [active] 317655008485 H2TH interface [polypeptide binding]; other site 317655008486 putative catalytic residues [active] 317655008487 turnover-facilitating residue; other site 317655008488 intercalation triad [nucleotide binding]; other site 317655008489 8OG recognition residue [nucleotide binding]; other site 317655008490 putative reading head residues; other site 317655008491 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 317655008492 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384