-- dump date 20140619_144952 -- class Genbank::misc_feature -- table misc_feature_note -- id note 187303000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 187303000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 187303000003 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 187303000004 Walker A motif; other site 187303000005 ATP binding site [chemical binding]; other site 187303000006 Walker B motif; other site 187303000007 arginine finger; other site 187303000008 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 187303000009 DnaA box-binding interface [nucleotide binding]; other site 187303000010 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 187303000011 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 187303000012 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 187303000013 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 187303000014 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 187303000015 active site 187303000016 phosphorylation site [posttranslational modification] 187303000017 intermolecular recognition site; other site 187303000018 dimerization interface [polypeptide binding]; other site 187303000019 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 187303000020 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303000021 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 187303000022 ATP binding site [chemical binding]; other site 187303000023 Mg2+ binding site [ion binding]; other site 187303000024 G-X-G motif; other site 187303000025 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 187303000026 substrate binding pocket [chemical binding]; other site 187303000027 substrate-Mg2+ binding site; other site 187303000028 aspartate-rich region 1; other site 187303000029 aspartate-rich region 2; other site 187303000030 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 187303000031 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 187303000032 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 187303000033 Protein export membrane protein; Region: SecD_SecF; pfam02355 187303000034 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 187303000035 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 187303000036 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 187303000037 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 187303000038 Preprotein translocase subunit; Region: YajC; pfam02699 187303000039 acetylornithine deacetylase; Provisional; Region: PRK07522 187303000040 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 187303000041 metal binding site [ion binding]; metal-binding site 187303000042 putative dimer interface [polypeptide binding]; other site 187303000043 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 187303000044 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 187303000045 N-terminal plug; other site 187303000046 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303000047 ligand-binding site [chemical binding]; other site 187303000048 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 187303000049 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 187303000050 homodimer interface [polypeptide binding]; other site 187303000051 substrate-cofactor binding pocket; other site 187303000052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303000053 catalytic residue [active] 187303000054 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 187303000055 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 187303000056 trimer interface [polypeptide binding]; other site 187303000057 active site 187303000058 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 187303000059 Cytochrome c [Energy production and conversion]; Region: COG3258 187303000060 Cytochrome c; Region: Cytochrom_C; pfam00034 187303000061 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 187303000062 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 187303000063 hinge; other site 187303000064 active site 187303000065 cytidylate kinase; Provisional; Region: cmk; PRK00023 187303000066 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 187303000067 CMP-binding site; other site 187303000068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303000069 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 187303000070 DNA binding residues [nucleotide binding] 187303000071 dimerization interface [polypeptide binding]; other site 187303000072 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 187303000073 active site 187303000074 HIGH motif; other site 187303000075 nucleotide binding site [chemical binding]; other site 187303000076 active site 187303000077 KMSKS motif; other site 187303000078 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 187303000079 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 187303000080 acyl carrier protein; Provisional; Region: PRK07081 187303000081 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 187303000082 Peptidase family M23; Region: Peptidase_M23; pfam01551 187303000083 Predicted membrane protein [Function unknown]; Region: COG2323 187303000084 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 187303000085 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 187303000086 Protein of unknown function (DUF983); Region: DUF983; cl02211 187303000087 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 187303000088 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 187303000089 Competence protein; Region: Competence; pfam03772 187303000090 LexA repressor; Validated; Region: PRK00215 187303000091 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 187303000092 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 187303000093 Catalytic site [active] 187303000094 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 187303000095 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303000096 active site 187303000097 HIGH motif; other site 187303000098 nucleotide binding site [chemical binding]; other site 187303000099 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 187303000100 active site 187303000101 KMSKS motif; other site 187303000102 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 187303000103 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 187303000104 dimer interface [polypeptide binding]; other site 187303000105 active site 187303000106 citrylCoA binding site [chemical binding]; other site 187303000107 NADH binding [chemical binding]; other site 187303000108 cationic pore residues; other site 187303000109 oxalacetate/citrate binding site [chemical binding]; other site 187303000110 coenzyme A binding site [chemical binding]; other site 187303000111 catalytic triad [active] 187303000112 YcjX-like family, DUF463; Region: DUF463; pfam04317 187303000113 Dodecin; Region: Dodecin; pfam07311 187303000114 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 187303000115 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 187303000116 putative dimer interface [polypeptide binding]; other site 187303000117 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303000118 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 187303000119 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303000120 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 187303000121 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 187303000122 substrate binding site [chemical binding]; other site 187303000123 ligand binding site [chemical binding]; other site 187303000124 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 187303000125 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 187303000126 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 187303000127 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 187303000128 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 187303000129 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 187303000130 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 187303000131 substrate binding site [chemical binding]; other site 187303000132 ATP binding site [chemical binding]; other site 187303000133 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 187303000134 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 187303000135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 187303000136 Zn2+ binding site [ion binding]; other site 187303000137 Mg2+ binding site [ion binding]; other site 187303000138 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 187303000139 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 187303000140 active site flap/lid [active] 187303000141 nucleophilic elbow; other site 187303000142 catalytic triad [active] 187303000143 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 187303000144 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 187303000145 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 187303000146 active site 187303000147 HIGH motif; other site 187303000148 KMSK motif region; other site 187303000149 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 187303000150 tRNA binding surface [nucleotide binding]; other site 187303000151 anticodon binding site; other site 187303000152 Sporulation related domain; Region: SPOR; pfam05036 187303000153 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 187303000154 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 187303000155 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 187303000156 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 187303000157 putative active site [active] 187303000158 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 187303000159 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 187303000160 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 187303000161 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 187303000162 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 187303000163 seryl-tRNA synthetase; Provisional; Region: PRK05431 187303000164 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 187303000165 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 187303000166 dimer interface [polypeptide binding]; other site 187303000167 active site 187303000168 motif 1; other site 187303000169 motif 2; other site 187303000170 motif 3; other site 187303000171 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 187303000172 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 187303000173 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 187303000174 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 187303000175 Peptidase family M23; Region: Peptidase_M23; pfam01551 187303000176 Predicted ATPase [General function prediction only]; Region: COG1485 187303000177 Predicted acetyltransferase [General function prediction only]; Region: COG3153 187303000178 Coenzyme A binding pocket [chemical binding]; other site 187303000179 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 187303000180 nudix motif; other site 187303000181 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 187303000182 active site 187303000183 metal binding site [ion binding]; metal-binding site 187303000184 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 187303000185 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 187303000186 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 187303000187 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 187303000188 Acetokinase family; Region: Acetate_kinase; cl17229 187303000189 propionate/acetate kinase; Provisional; Region: PRK12379 187303000190 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303000191 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 187303000192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303000193 NAD(P) binding site [chemical binding]; other site 187303000194 active site 187303000195 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 187303000196 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 187303000197 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 187303000198 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 187303000199 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 187303000200 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 187303000201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187303000202 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 187303000203 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 187303000204 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187303000205 ATP-grasp domain; Region: ATP-grasp_4; cl17255 187303000206 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 187303000207 IMP binding site; other site 187303000208 dimer interface [polypeptide binding]; other site 187303000209 partial ornithine binding site; other site 187303000210 Cytochrome c553 [Energy production and conversion]; Region: COG2863 187303000211 Predicted membrane protein [Function unknown]; Region: COG2246 187303000212 GtrA-like protein; Region: GtrA; pfam04138 187303000213 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 187303000214 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 187303000215 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 187303000216 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 187303000217 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 187303000218 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 187303000219 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 187303000220 [2Fe-2S] cluster binding site [ion binding]; other site 187303000221 cytochrome b; Provisional; Region: CYTB; MTH00191 187303000222 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 187303000223 Qi binding site; other site 187303000224 intrachain domain interface; other site 187303000225 interchain domain interface [polypeptide binding]; other site 187303000226 heme bH binding site [chemical binding]; other site 187303000227 heme bL binding site [chemical binding]; other site 187303000228 Qo binding site; other site 187303000229 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 187303000230 interchain domain interface [polypeptide binding]; other site 187303000231 intrachain domain interface; other site 187303000232 Qi binding site; other site 187303000233 Qo binding site; other site 187303000234 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 187303000235 Cytochrome c; Region: Cytochrom_C; cl11414 187303000236 homoserine dehydrogenase; Provisional; Region: PRK06349 187303000237 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 187303000238 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 187303000239 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 187303000240 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 187303000241 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 187303000242 active site 187303000243 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 187303000244 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 187303000245 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 187303000246 putative active site [active] 187303000247 GMP synthase; Reviewed; Region: guaA; PRK00074 187303000248 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 187303000249 AMP/PPi binding site [chemical binding]; other site 187303000250 candidate oxyanion hole; other site 187303000251 catalytic triad [active] 187303000252 potential glutamine specificity residues [chemical binding]; other site 187303000253 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 187303000254 ATP Binding subdomain [chemical binding]; other site 187303000255 Ligand Binding sites [chemical binding]; other site 187303000256 Dimerization subdomain; other site 187303000257 integrase; Provisional; Region: PRK09692 187303000258 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 187303000259 active site 187303000260 Int/Topo IB signature motif; other site 187303000261 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 187303000262 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 187303000263 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 187303000264 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 187303000265 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 187303000266 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 187303000267 VirB7 interaction site; other site 187303000268 conjugal transfer protein TrbF; Provisional; Region: PRK13872 187303000269 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 187303000270 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 187303000271 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 187303000272 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 187303000273 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 187303000274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303000275 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303000276 Walker A motif; other site 187303000277 Walker A/P-loop; other site 187303000278 ATP binding site [chemical binding]; other site 187303000279 ATP binding site [chemical binding]; other site 187303000280 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303000281 Walker B; other site 187303000282 D-loop; other site 187303000283 H-loop/switch region; other site 187303000284 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 187303000285 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 187303000286 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 187303000287 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 187303000288 ATP binding site [chemical binding]; other site 187303000289 Walker A motif; other site 187303000290 hexamer interface [polypeptide binding]; other site 187303000291 Walker B motif; other site 187303000292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 187303000293 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 187303000294 binding surface 187303000295 TPR motif; other site 187303000296 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 187303000297 binding surface 187303000298 TPR motif; other site 187303000299 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 187303000300 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 187303000301 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 187303000302 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303000303 Walker A motif; other site 187303000304 ATP binding site [chemical binding]; other site 187303000305 Walker B motif; other site 187303000306 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 187303000307 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 187303000308 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 187303000309 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303000310 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303000311 catalytic residue [active] 187303000312 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 187303000313 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 187303000314 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 187303000315 Replication initiator protein A; Region: RPA; pfam10134 187303000316 Helix-turn-helix domain; Region: HTH_17; pfam12728 187303000317 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 187303000318 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303000319 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 187303000320 non-specific DNA binding site [nucleotide binding]; other site 187303000321 salt bridge; other site 187303000322 sequence-specific DNA binding site [nucleotide binding]; other site 187303000323 Uncharacterized conserved protein [Function unknown]; Region: COG5489 187303000324 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303000325 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 187303000326 S-adenosylmethionine binding site [chemical binding]; other site 187303000327 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 187303000328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187303000329 putative substrate translocation pore; other site 187303000330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187303000331 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 187303000332 dimerization interface [polypeptide binding]; other site 187303000333 putative DNA binding site [nucleotide binding]; other site 187303000334 putative Zn2+ binding site [ion binding]; other site 187303000335 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187303000336 active site residue [active] 187303000337 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 187303000338 S-adenosylmethionine binding site [chemical binding]; other site 187303000339 DsrE/DsrF-like family; Region: DrsE; pfam02635 187303000340 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 187303000341 Toprim domain; Region: Toprim_3; pfam13362 187303000342 ParB-like nuclease domain; Region: ParB; smart00470 187303000343 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 187303000344 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 187303000345 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 187303000346 AAA domain; Region: AAA_14; pfam13173 187303000347 Uncharacterized conserved protein [Function unknown]; Region: COG1479 187303000348 Protein of unknown function DUF262; Region: DUF262; pfam03235 187303000349 Uncharacterized conserved protein [Function unknown]; Region: COG3472 187303000350 Divergent AAA domain; Region: AAA_4; pfam04326 187303000351 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 187303000352 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 187303000353 ATP binding site [chemical binding]; other site 187303000354 putative Mg++ binding site [ion binding]; other site 187303000355 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 187303000356 DEAD-like helicases superfamily; Region: DEXDc; smart00487 187303000357 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 187303000358 ATP binding site [chemical binding]; other site 187303000359 putative Mg++ binding site [ion binding]; other site 187303000360 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 187303000361 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 187303000362 nucleotide binding region [chemical binding]; other site 187303000363 ATP-binding site [chemical binding]; other site 187303000364 Methyltransferase domain; Region: Methyltransf_26; pfam13659 187303000365 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 187303000366 HNH endonuclease; Region: HNH_2; pfam13391 187303000367 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 187303000368 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG5014 187303000369 FeS/SAM binding site; other site 187303000370 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 187303000371 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 187303000372 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303000373 non-specific DNA binding site [nucleotide binding]; other site 187303000374 salt bridge; other site 187303000375 sequence-specific DNA binding site [nucleotide binding]; other site 187303000376 Domain of unknown function (DUF955); Region: DUF955; pfam06114 187303000377 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 187303000378 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 187303000379 CHAT domain; Region: CHAT; cl17868 187303000380 Peptidase S8 family domain, uncharacterized subfamily 12; Region: Peptidases_S8_12; cd07480 187303000381 active site 187303000382 catalytic triad [active] 187303000383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 187303000384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303000385 Predicted ATPase [General function prediction only]; Region: COG3911 187303000386 AAA domain; Region: AAA_28; pfam13521 187303000387 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 187303000388 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 187303000389 Cu(I) binding site [ion binding]; other site 187303000390 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 187303000391 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 187303000392 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 187303000393 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 187303000394 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 187303000395 S-adenosylmethionine binding site [chemical binding]; other site 187303000396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303000397 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303000398 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 187303000399 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 187303000400 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 187303000401 TetR family transcriptional regulator; Provisional; Region: PRK14996 187303000402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303000403 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303000404 HAMP domain; Region: HAMP; pfam00672 187303000405 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 187303000406 dimer interface [polypeptide binding]; other site 187303000407 phosphorylation site [posttranslational modification] 187303000408 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 187303000409 ATP binding site [chemical binding]; other site 187303000410 Mg2+ binding site [ion binding]; other site 187303000411 G-X-G motif; other site 187303000412 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303000413 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 187303000414 active site 187303000415 phosphorylation site [posttranslational modification] 187303000416 intermolecular recognition site; other site 187303000417 dimerization interface [polypeptide binding]; other site 187303000418 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 187303000419 DNA binding site [nucleotide binding] 187303000420 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 187303000421 MarR family; Region: MarR_2; pfam12802 187303000422 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 187303000423 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 187303000424 homodimer interface [polypeptide binding]; other site 187303000425 substrate-cofactor binding pocket; other site 187303000426 catalytic residue [active] 187303000427 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 187303000428 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 187303000429 inhibitor-cofactor binding pocket; inhibition site 187303000430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303000431 catalytic residue [active] 187303000432 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303000433 DNA-binding site [nucleotide binding]; DNA binding site 187303000434 RNA-binding motif; other site 187303000435 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303000436 DNA-binding site [nucleotide binding]; DNA binding site 187303000437 RNA-binding motif; other site 187303000438 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 187303000439 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 187303000440 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 187303000441 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 187303000442 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 187303000443 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 187303000444 nudix motif; other site 187303000445 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 187303000446 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 187303000447 Ammonia monooxygenase; Region: AMO; pfam02461 187303000448 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 187303000449 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 187303000450 cystathionine beta-lyase; Provisional; Region: PRK05967 187303000451 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 187303000452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303000453 catalytic residue [active] 187303000454 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 187303000455 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 187303000456 substrate binding pocket [chemical binding]; other site 187303000457 membrane-bound complex binding site; other site 187303000458 hinge residues; other site 187303000459 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 187303000460 von Willebrand factor type A domain; Region: VWA_2; pfam13519 187303000461 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 187303000462 HSP70 interaction site [polypeptide binding]; other site 187303000463 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 187303000464 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 187303000465 Sporulation related domain; Region: SPOR; pfam05036 187303000466 Phasin protein; Region: Phasin_2; pfam09361 187303000467 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 187303000468 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 187303000469 putative active site [active] 187303000470 putative PHP Thumb interface [polypeptide binding]; other site 187303000471 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 187303000472 generic binding surface II; other site 187303000473 generic binding surface I; other site 187303000474 lipoyl synthase; Provisional; Region: PRK05481 187303000475 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 187303000476 FeS/SAM binding site; other site 187303000477 Competence-damaged protein; Region: CinA; pfam02464 187303000478 hypothetical protein; Provisional; Region: PRK09256 187303000479 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 187303000480 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 187303000481 substrate binding site; other site 187303000482 dimer interface; other site 187303000483 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 187303000484 homotrimer interaction site [polypeptide binding]; other site 187303000485 zinc binding site [ion binding]; other site 187303000486 CDP-binding sites; other site 187303000487 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 187303000488 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 187303000489 FMN binding site [chemical binding]; other site 187303000490 active site 187303000491 catalytic residues [active] 187303000492 substrate binding site [chemical binding]; other site 187303000493 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303000494 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 187303000495 dimer interface [polypeptide binding]; other site 187303000496 phosphorylation site [posttranslational modification] 187303000497 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 187303000498 ATP binding site [chemical binding]; other site 187303000499 Mg2+ binding site [ion binding]; other site 187303000500 G-X-G motif; other site 187303000501 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 187303000502 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 187303000503 active site 187303000504 phosphorylation site [posttranslational modification] 187303000505 intermolecular recognition site; other site 187303000506 dimerization interface [polypeptide binding]; other site 187303000507 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 187303000508 Walker A motif; other site 187303000509 ATP binding site [chemical binding]; other site 187303000510 Walker B motif; other site 187303000511 arginine finger; other site 187303000512 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 187303000513 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 187303000514 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 187303000515 dimerization interface [polypeptide binding]; other site 187303000516 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 187303000517 dimer interface [polypeptide binding]; other site 187303000518 phosphorylation site [posttranslational modification] 187303000519 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 187303000520 ATP binding site [chemical binding]; other site 187303000521 Mg2+ binding site [ion binding]; other site 187303000522 G-X-G motif; other site 187303000523 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 187303000524 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 187303000525 active site 187303000526 phosphorylation site [posttranslational modification] 187303000527 intermolecular recognition site; other site 187303000528 dimerization interface [polypeptide binding]; other site 187303000529 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 187303000530 Walker A motif; other site 187303000531 ATP binding site [chemical binding]; other site 187303000532 Walker B motif; other site 187303000533 arginine finger; other site 187303000534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 187303000535 bacterial Hfq-like; Region: Hfq; cd01716 187303000536 hexamer interface [polypeptide binding]; other site 187303000537 Sm1 motif; other site 187303000538 RNA binding site [nucleotide binding]; other site 187303000539 Sm2 motif; other site 187303000540 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 187303000541 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 187303000542 HflX GTPase family; Region: HflX; cd01878 187303000543 G1 box; other site 187303000544 GTP/Mg2+ binding site [chemical binding]; other site 187303000545 Switch I region; other site 187303000546 G2 box; other site 187303000547 G3 box; other site 187303000548 Switch II region; other site 187303000549 G4 box; other site 187303000550 G5 box; other site 187303000551 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 187303000552 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 187303000553 homodimer interface [polypeptide binding]; other site 187303000554 metal binding site [ion binding]; metal-binding site 187303000555 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 187303000556 homodimer interface [polypeptide binding]; other site 187303000557 active site 187303000558 putative chemical substrate binding site [chemical binding]; other site 187303000559 metal binding site [ion binding]; metal-binding site 187303000560 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303000561 DNA-binding site [nucleotide binding]; DNA binding site 187303000562 RNA-binding motif; other site 187303000563 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303000564 DNA-binding site [nucleotide binding]; DNA binding site 187303000565 RNA-binding motif; other site 187303000566 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 187303000567 putative hydrolase; Provisional; Region: PRK02113 187303000568 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 187303000569 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 187303000570 active site 187303000571 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 187303000572 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 187303000573 putative active site [active] 187303000574 putative metal binding site [ion binding]; other site 187303000575 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 187303000576 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303000577 active site 187303000578 metal binding site [ion binding]; metal-binding site 187303000579 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303000580 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 187303000581 S-adenosylmethionine binding site [chemical binding]; other site 187303000582 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 187303000583 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 187303000584 active site 187303000585 HIGH motif; other site 187303000586 KMSKS motif; other site 187303000587 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 187303000588 tRNA binding surface [nucleotide binding]; other site 187303000589 anticodon binding site; other site 187303000590 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 187303000591 putative active site [active] 187303000592 Tandem repeat subunit of reelin and related proteins; Region: Reelin_subrepeat_like; cl15240 187303000593 short chain dehydrogenase; Provisional; Region: PRK09134 187303000594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303000595 NAD(P) binding site [chemical binding]; other site 187303000596 active site 187303000597 DNA gyrase, A subunit; Region: gyrA; TIGR01063 187303000598 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 187303000599 CAP-like domain; other site 187303000600 active site 187303000601 primary dimer interface [polypeptide binding]; other site 187303000602 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187303000603 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187303000604 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187303000605 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187303000606 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 187303000607 TfoX N-terminal domain; Region: TfoX_N; pfam04993 187303000608 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 187303000609 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 187303000610 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 187303000611 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 187303000612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303000613 catalytic residue [active] 187303000614 FeS assembly protein SufD; Region: sufD; TIGR01981 187303000615 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 187303000616 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 187303000617 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 187303000618 Walker A/P-loop; other site 187303000619 ATP binding site [chemical binding]; other site 187303000620 Q-loop/lid; other site 187303000621 ABC transporter signature motif; other site 187303000622 Walker B; other site 187303000623 D-loop; other site 187303000624 H-loop/switch region; other site 187303000625 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 187303000626 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 187303000627 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 187303000628 putative ABC transporter; Region: ycf24; CHL00085 187303000629 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 187303000630 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 187303000631 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303000632 catalytic residue [active] 187303000633 acetoacetate decarboxylase; Provisional; Region: PRK02265 187303000634 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 187303000635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303000636 NAD(P) binding site [chemical binding]; other site 187303000637 active site 187303000638 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 187303000639 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 187303000640 active site 187303000641 nucleophile elbow; other site 187303000642 Patatin phospholipase; Region: DUF3734; pfam12536 187303000643 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 187303000644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303000645 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303000646 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303000647 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 187303000648 Predicted transcriptional regulator [Transcription]; Region: COG3655 187303000649 non-specific DNA binding site [nucleotide binding]; other site 187303000650 salt bridge; other site 187303000651 sequence-specific DNA binding site [nucleotide binding]; other site 187303000652 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 187303000653 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 187303000654 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 187303000655 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 187303000656 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 187303000657 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 187303000658 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 187303000659 Protein of unknown function DUF58; Region: DUF58; pfam01882 187303000660 MoxR-like ATPases [General function prediction only]; Region: COG0714 187303000661 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 187303000662 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 187303000663 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 187303000664 active site 187303000665 NTP binding site [chemical binding]; other site 187303000666 metal binding triad [ion binding]; metal-binding site 187303000667 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 187303000668 DNA polymerase III subunit delta'; Validated; Region: PRK07471 187303000669 DNA polymerase III subunit delta'; Validated; Region: PRK08485 187303000670 thymidylate kinase; Validated; Region: tmk; PRK00698 187303000671 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 187303000672 TMP-binding site; other site 187303000673 ATP-binding site [chemical binding]; other site 187303000674 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 187303000675 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 187303000676 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 187303000677 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 187303000678 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 187303000679 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 187303000680 DHH family; Region: DHH; pfam01368 187303000681 DHHA1 domain; Region: DHHA1; pfam02272 187303000682 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 187303000683 MarC family integral membrane protein; Region: MarC; cl00919 187303000684 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 187303000685 active site 187303000686 catalytic residues [active] 187303000687 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 187303000688 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 187303000689 dimer interface [polypeptide binding]; other site 187303000690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303000691 catalytic residue [active] 187303000692 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 187303000693 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 187303000694 GTP binding site; other site 187303000695 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 187303000696 catalytic residues [active] 187303000697 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 187303000698 Predicted integral membrane protein [Function unknown]; Region: COG0392 187303000699 Yip1 domain; Region: Yip1; cl17815 187303000700 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 187303000701 MoaE homodimer interface [polypeptide binding]; other site 187303000702 MoaD interaction [polypeptide binding]; other site 187303000703 active site residues [active] 187303000704 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 187303000705 MoaE interaction surface [polypeptide binding]; other site 187303000706 MoeB interaction surface [polypeptide binding]; other site 187303000707 thiocarboxylated glycine; other site 187303000708 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 187303000709 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 187303000710 putative FMN binding site [chemical binding]; other site 187303000711 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 187303000712 TPR repeat; Region: TPR_11; pfam13414 187303000713 binding surface 187303000714 TPR motif; other site 187303000715 acyl carrier protein; Provisional; Region: PRK07081 187303000716 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 187303000717 CHASE3 domain; Region: CHASE3; pfam05227 187303000718 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 187303000719 dimer interface [polypeptide binding]; other site 187303000720 phosphorylation site [posttranslational modification] 187303000721 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 187303000722 ATP binding site [chemical binding]; other site 187303000723 Mg2+ binding site [ion binding]; other site 187303000724 G-X-G motif; other site 187303000725 Response regulator receiver domain; Region: Response_reg; pfam00072 187303000726 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 187303000727 active site 187303000728 phosphorylation site [posttranslational modification] 187303000729 intermolecular recognition site; other site 187303000730 dimerization interface [polypeptide binding]; other site 187303000731 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 187303000732 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 187303000733 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 187303000734 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 187303000735 PLD-like domain; Region: PLDc_2; pfam13091 187303000736 putative active site [active] 187303000737 catalytic site [active] 187303000738 UGMP family protein; Validated; Region: PRK09604 187303000739 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 187303000740 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 187303000741 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; cl17708 187303000742 domain interfaces; other site 187303000743 active site 187303000744 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 187303000745 Beta-lactamase; Region: Beta-lactamase; pfam00144 187303000746 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 187303000747 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 187303000748 siroheme synthase; Provisional; Region: cysG; PRK10637 187303000749 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 187303000750 active site 187303000751 SAM binding site [chemical binding]; other site 187303000752 homodimer interface [polypeptide binding]; other site 187303000753 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 187303000754 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 187303000755 N-terminal plug; other site 187303000756 ligand-binding site [chemical binding]; other site 187303000757 Cytochrome c2 [Energy production and conversion]; Region: COG3474 187303000758 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 187303000759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303000760 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 187303000761 dimer interface [polypeptide binding]; other site 187303000762 phosphorylation site [posttranslational modification] 187303000763 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 187303000764 ATP binding site [chemical binding]; other site 187303000765 Mg2+ binding site [ion binding]; other site 187303000766 G-X-G motif; other site 187303000767 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303000768 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 187303000769 active site 187303000770 phosphorylation site [posttranslational modification] 187303000771 intermolecular recognition site; other site 187303000772 dimerization interface [polypeptide binding]; other site 187303000773 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 187303000774 catalytic core [active] 187303000775 dihydrodipicolinate reductase; Provisional; Region: PRK00048 187303000776 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 187303000777 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 187303000778 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 187303000779 MPT binding site; other site 187303000780 trimer interface [polypeptide binding]; other site 187303000781 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 187303000782 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 187303000783 Mycobacterium tuberculosis PIN domain family; Region: Mtu_PIN_fam; TIGR00028 187303000784 putative active site [active] 187303000785 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 187303000786 ThiC-associated domain; Region: ThiC-associated; pfam13667 187303000787 ThiC family; Region: ThiC; pfam01964 187303000788 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 187303000789 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 187303000790 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303000791 Soluble P-type ATPase [General function prediction only]; Region: COG4087 187303000792 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187303000793 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 187303000794 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 187303000795 e3 binding domain; Region: E3_binding; pfam02817 187303000796 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 187303000797 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 187303000798 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 187303000799 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 187303000800 E3 interaction surface; other site 187303000801 lipoyl attachment site [posttranslational modification]; other site 187303000802 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 187303000803 alpha subunit interface [polypeptide binding]; other site 187303000804 TPP binding site [chemical binding]; other site 187303000805 heterodimer interface [polypeptide binding]; other site 187303000806 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187303000807 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 187303000808 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 187303000809 tetramer interface [polypeptide binding]; other site 187303000810 TPP-binding site [chemical binding]; other site 187303000811 heterodimer interface [polypeptide binding]; other site 187303000812 phosphorylation loop region [posttranslational modification] 187303000813 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 187303000814 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 187303000815 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 187303000816 dimer interface [polypeptide binding]; other site 187303000817 ADP-ribose binding site [chemical binding]; other site 187303000818 active site 187303000819 nudix motif; other site 187303000820 metal binding site [ion binding]; metal-binding site 187303000821 elongation factor Tu; Reviewed; Region: PRK00049 187303000822 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 187303000823 G1 box; other site 187303000824 GEF interaction site [polypeptide binding]; other site 187303000825 GTP/Mg2+ binding site [chemical binding]; other site 187303000826 Switch I region; other site 187303000827 G2 box; other site 187303000828 G3 box; other site 187303000829 Switch II region; other site 187303000830 G4 box; other site 187303000831 G5 box; other site 187303000832 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 187303000833 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 187303000834 Antibiotic Binding Site [chemical binding]; other site 187303000835 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 187303000836 dihydroorotase; Validated; Region: PRK09059 187303000837 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 187303000838 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 187303000839 active site 187303000840 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303000841 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 187303000842 putative active site [active] 187303000843 heme pocket [chemical binding]; other site 187303000844 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 187303000845 dimer interface [polypeptide binding]; other site 187303000846 phosphorylation site [posttranslational modification] 187303000847 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 187303000848 ATP binding site [chemical binding]; other site 187303000849 Mg2+ binding site [ion binding]; other site 187303000850 G-X-G motif; other site 187303000851 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 187303000852 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 187303000853 Walker A/P-loop; other site 187303000854 ATP binding site [chemical binding]; other site 187303000855 Q-loop/lid; other site 187303000856 ABC transporter signature motif; other site 187303000857 Walker B; other site 187303000858 D-loop; other site 187303000859 H-loop/switch region; other site 187303000860 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 187303000861 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 187303000862 putative active site [active] 187303000863 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 187303000864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187303000865 putative acyl-acceptor binding pocket; other site 187303000866 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 187303000867 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 187303000868 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 187303000869 active site 187303000870 catalytic triad [active] 187303000871 oxyanion hole [active] 187303000872 switch loop; other site 187303000873 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 187303000874 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 187303000875 Walker A/P-loop; other site 187303000876 ATP binding site [chemical binding]; other site 187303000877 Q-loop/lid; other site 187303000878 ABC transporter signature motif; other site 187303000879 Walker B; other site 187303000880 D-loop; other site 187303000881 H-loop/switch region; other site 187303000882 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 187303000883 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 187303000884 CopC domain; Region: CopC; cl01012 187303000885 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 187303000886 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 187303000887 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 187303000888 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 187303000889 replicative DNA helicase; Provisional; Region: PRK09165 187303000890 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 187303000891 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 187303000892 Walker A motif; other site 187303000893 ATP binding site [chemical binding]; other site 187303000894 Walker B motif; other site 187303000895 DNA binding loops [nucleotide binding] 187303000896 PRC-barrel domain; Region: PRC; pfam05239 187303000897 PRC-barrel domain; Region: PRC; pfam05239 187303000898 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 187303000899 putative active site [active] 187303000900 putative catalytic site [active] 187303000901 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 187303000902 putative active site [active] 187303000903 putative catalytic site [active] 187303000904 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 187303000905 YGGT family; Region: YGGT; pfam02325 187303000906 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 187303000907 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 187303000908 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 187303000909 Ligand Binding Site [chemical binding]; other site 187303000910 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303000911 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303000912 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 187303000913 Septum formation initiator; Region: DivIC; cl17659 187303000914 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 187303000915 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 187303000916 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 187303000917 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 187303000918 Rrf2 family protein; Region: rrf2_super; TIGR00738 187303000919 Transcriptional regulator; Region: Rrf2; pfam02082 187303000920 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 187303000921 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 187303000922 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 187303000923 dimer interface [polypeptide binding]; other site 187303000924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303000925 catalytic residue [active] 187303000926 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 187303000927 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 187303000928 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187303000929 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 187303000930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 187303000931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 187303000932 quinolinate synthetase; Provisional; Region: PRK09375 187303000933 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 187303000934 L-aspartate oxidase; Provisional; Region: PRK07512 187303000935 L-aspartate oxidase; Provisional; Region: PRK06175 187303000936 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 187303000937 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 187303000938 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 187303000939 dimerization interface [polypeptide binding]; other site 187303000940 active site 187303000941 Methyltransferase domain; Region: Methyltransf_24; pfam13578 187303000942 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 187303000943 putative active site [active] 187303000944 YdjC motif; other site 187303000945 Mg binding site [ion binding]; other site 187303000946 putative homodimer interface [polypeptide binding]; other site 187303000947 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 187303000948 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 187303000949 Ligand binding site; other site 187303000950 Putative Catalytic site; other site 187303000951 DXD motif; other site 187303000952 integral membrane protein MviN; Region: mviN; TIGR01695 187303000953 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 187303000954 aspartate kinase; Reviewed; Region: PRK06635 187303000955 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 187303000956 putative nucleotide binding site [chemical binding]; other site 187303000957 putative catalytic residues [active] 187303000958 putative Mg ion binding site [ion binding]; other site 187303000959 putative aspartate binding site [chemical binding]; other site 187303000960 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 187303000961 putative allosteric regulatory site; other site 187303000962 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 187303000963 putative allosteric regulatory residue; other site 187303000964 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 187303000965 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 187303000966 S-adenosylmethionine binding site [chemical binding]; other site 187303000967 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 187303000968 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 187303000969 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 187303000970 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 187303000971 Rhomboid family; Region: Rhomboid; pfam01694 187303000972 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 187303000973 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 187303000974 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303000975 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 187303000976 E3 interaction surface; other site 187303000977 lipoyl attachment site [posttranslational modification]; other site 187303000978 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303000979 YccJ-like protein; Region: YccJ; cl08091 187303000980 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 187303000981 active site 187303000982 catalytic triad [active] 187303000983 oxyanion hole [active] 187303000984 switch loop; other site 187303000985 Domain of unknown function (DUF202); Region: DUF202; cl09954 187303000986 HflK protein; Region: hflK; TIGR01933 187303000987 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 187303000988 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 187303000989 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 187303000990 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303000991 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 187303000992 protein binding site [polypeptide binding]; other site 187303000993 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 187303000994 protein binding site [polypeptide binding]; other site 187303000995 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 187303000996 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 187303000997 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 187303000998 motif II; other site 187303000999 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 187303001000 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 187303001001 Ferredoxin [Energy production and conversion]; Region: COG1146 187303001002 4Fe-4S binding domain; Region: Fer4; pfam00037 187303001003 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 187303001004 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 187303001005 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 187303001006 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303001007 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 187303001008 DNA binding residues [nucleotide binding] 187303001009 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 187303001010 Peptidase family M48; Region: Peptidase_M48; cl12018 187303001011 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 187303001012 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 187303001013 binding surface 187303001014 TPR motif; other site 187303001015 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 187303001016 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 187303001017 Ligand Binding Site [chemical binding]; other site 187303001018 FtsH Extracellular; Region: FtsH_ext; pfam06480 187303001019 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 187303001020 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 187303001021 Walker A motif; other site 187303001022 ATP binding site [chemical binding]; other site 187303001023 Walker B motif; other site 187303001024 arginine finger; other site 187303001025 Peptidase family M41; Region: Peptidase_M41; pfam01434 187303001026 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 187303001027 ArsC family; Region: ArsC; pfam03960 187303001028 catalytic residues [active] 187303001029 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 187303001030 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 187303001031 active site 187303001032 substrate binding site [chemical binding]; other site 187303001033 metal binding site [ion binding]; metal-binding site 187303001034 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 187303001035 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 187303001036 Chromate transporter; Region: Chromate_transp; pfam02417 187303001037 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 187303001038 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 187303001039 generic binding surface II; other site 187303001040 generic binding surface I; other site 187303001041 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 187303001042 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187303001043 ligand binding site [chemical binding]; other site 187303001044 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 187303001045 Isochorismatase family; Region: Isochorismatase; pfam00857 187303001046 catalytic triad [active] 187303001047 conserved cis-peptide bond; other site 187303001048 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 187303001049 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 187303001050 active site 187303001051 Sensors of blue-light using FAD; Region: BLUF; pfam04940 187303001052 Phasin protein; Region: Phasin_2; cl11491 187303001053 Protein of unknown function (DUF2585); Region: DUF2585; cl07906 187303001054 gamma-glutamyl kinase; Provisional; Region: PRK05429 187303001055 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 187303001056 nucleotide binding site [chemical binding]; other site 187303001057 homotetrameric interface [polypeptide binding]; other site 187303001058 putative phosphate binding site [ion binding]; other site 187303001059 putative allosteric binding site; other site 187303001060 PUA domain; Region: PUA; pfam01472 187303001061 Protein of unknown function DUF262; Region: DUF262; pfam03235 187303001062 Uncharacterized conserved protein [Function unknown]; Region: COG1479 187303001063 Protein of unknown function DUF262; Region: DUF262; pfam03235 187303001064 Predicted transcriptional regulator [Transcription]; Region: COG1959 187303001065 Transcriptional regulator; Region: Rrf2; cl17282 187303001066 hybrid cluster protein; Provisional; Region: PRK05290 187303001067 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 187303001068 ACS interaction site; other site 187303001069 CODH interaction site; other site 187303001070 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 187303001071 hybrid metal cluster; other site 187303001072 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 187303001073 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 187303001074 catalytic loop [active] 187303001075 iron binding site [ion binding]; other site 187303001076 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 187303001077 FAD binding pocket [chemical binding]; other site 187303001078 conserved FAD binding motif [chemical binding]; other site 187303001079 phosphate binding motif [ion binding]; other site 187303001080 beta-alpha-beta structure motif; other site 187303001081 NAD binding pocket [chemical binding]; other site 187303001082 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 187303001083 Predicted membrane protein [Function unknown]; Region: COG4325 187303001084 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 187303001085 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 187303001086 active site 187303001087 metal binding site [ion binding]; metal-binding site 187303001088 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 187303001089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303001090 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 187303001091 active site 187303001092 phosphorylation site [posttranslational modification] 187303001093 intermolecular recognition site; other site 187303001094 dimerization interface [polypeptide binding]; other site 187303001095 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 187303001096 DNA binding site [nucleotide binding] 187303001097 sensor protein QseC; Provisional; Region: PRK10337 187303001098 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 187303001099 dimer interface [polypeptide binding]; other site 187303001100 phosphorylation site [posttranslational modification] 187303001101 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 187303001102 ATP binding site [chemical binding]; other site 187303001103 Mg2+ binding site [ion binding]; other site 187303001104 G-X-G motif; other site 187303001105 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 187303001106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303001107 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 187303001108 putative dimerization interface [polypeptide binding]; other site 187303001109 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 187303001110 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 187303001111 gating phenylalanine in ion channel; other site 187303001112 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 187303001113 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303001114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 187303001115 CHASE2 domain; Region: CHASE2; pfam05226 187303001116 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 187303001117 cyclase homology domain; Region: CHD; cd07302 187303001118 nucleotidyl binding site; other site 187303001119 metal binding site [ion binding]; metal-binding site 187303001120 dimer interface [polypeptide binding]; other site 187303001121 FecR protein; Region: FecR; pfam04773 187303001122 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 187303001123 TPR motif; other site 187303001124 binding surface 187303001125 Tetratricopeptide repeat; Region: TPR_9; pfam13371 187303001126 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303001127 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 187303001128 ligand binding site [chemical binding]; other site 187303001129 flexible hinge region; other site 187303001130 putative switch regulator; other site 187303001131 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; cl17320 187303001132 non-specific DNA interactions [nucleotide binding]; other site 187303001133 DNA binding site [nucleotide binding] 187303001134 sequence specific DNA binding site [nucleotide binding]; other site 187303001135 putative cAMP binding site [chemical binding]; other site 187303001136 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 187303001137 putative catalytic site [active] 187303001138 putative metal binding site [ion binding]; other site 187303001139 putative phosphate binding site [ion binding]; other site 187303001140 Protein of unknown function (DUF938); Region: DUF938; pfam06080 187303001141 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 187303001142 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 187303001143 active site 187303001144 Zn binding site [ion binding]; other site 187303001145 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 187303001146 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 187303001147 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 187303001148 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 187303001149 homodimer interface [polypeptide binding]; other site 187303001150 substrate-cofactor binding pocket; other site 187303001151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303001152 catalytic residue [active] 187303001153 NAD synthetase; Reviewed; Region: nadE; PRK02628 187303001154 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 187303001155 multimer interface [polypeptide binding]; other site 187303001156 active site 187303001157 catalytic triad [active] 187303001158 protein interface 1 [polypeptide binding]; other site 187303001159 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 187303001160 homodimer interface [polypeptide binding]; other site 187303001161 NAD binding pocket [chemical binding]; other site 187303001162 ATP binding pocket [chemical binding]; other site 187303001163 Mg binding site [ion binding]; other site 187303001164 active-site loop [active] 187303001165 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 187303001166 SnoaL-like domain; Region: SnoaL_2; pfam12680 187303001167 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 187303001168 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303001169 putative C-terminal domain interface [polypeptide binding]; other site 187303001170 putative GSH binding site (G-site) [chemical binding]; other site 187303001171 putative dimer interface [polypeptide binding]; other site 187303001172 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 187303001173 putative N-terminal domain interface [polypeptide binding]; other site 187303001174 putative dimer interface [polypeptide binding]; other site 187303001175 putative substrate binding pocket (H-site) [chemical binding]; other site 187303001176 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 187303001177 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 187303001178 thiamine monophosphate kinase; Provisional; Region: PRK05731 187303001179 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 187303001180 dimerization interface [polypeptide binding]; other site 187303001181 ATP binding site [chemical binding]; other site 187303001182 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 187303001183 putative RNA binding site [nucleotide binding]; other site 187303001184 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 187303001185 homopentamer interface [polypeptide binding]; other site 187303001186 active site 187303001187 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 187303001188 Lumazine binding domain; Region: Lum_binding; pfam00677 187303001189 Lumazine binding domain; Region: Lum_binding; pfam00677 187303001190 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 187303001191 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 187303001192 catalytic motif [active] 187303001193 Zn binding site [ion binding]; other site 187303001194 RibD C-terminal domain; Region: RibD_C; cl17279 187303001195 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 187303001196 ATP cone domain; Region: ATP-cone; pfam03477 187303001197 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 187303001198 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 187303001199 dimer interface [polypeptide binding]; other site 187303001200 active site 187303001201 glycine-pyridoxal phosphate binding site [chemical binding]; other site 187303001202 folate binding site [chemical binding]; other site 187303001203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303001204 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 187303001205 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303001206 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303001207 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 187303001208 putative active site [active] 187303001209 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 187303001210 conserved cys residue [active] 187303001211 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 187303001212 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 187303001213 G1 box; other site 187303001214 putative GEF interaction site [polypeptide binding]; other site 187303001215 GTP/Mg2+ binding site [chemical binding]; other site 187303001216 Switch I region; other site 187303001217 G2 box; other site 187303001218 G3 box; other site 187303001219 Switch II region; other site 187303001220 G4 box; other site 187303001221 G5 box; other site 187303001222 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 187303001223 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 187303001224 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 187303001225 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 187303001226 Cysteine-rich domain; Region: CCG; pfam02754 187303001227 Rubrerythrin [Energy production and conversion]; Region: COG1592 187303001228 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 187303001229 binuclear metal center [ion binding]; other site 187303001230 O-methyltransferase; Region: Methyltransf_2; pfam00891 187303001231 GTP-binding protein Der; Reviewed; Region: PRK00093 187303001232 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 187303001233 G1 box; other site 187303001234 GTP/Mg2+ binding site [chemical binding]; other site 187303001235 Switch I region; other site 187303001236 G2 box; other site 187303001237 Switch II region; other site 187303001238 G3 box; other site 187303001239 G4 box; other site 187303001240 G5 box; other site 187303001241 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 187303001242 G1 box; other site 187303001243 GTP/Mg2+ binding site [chemical binding]; other site 187303001244 Switch I region; other site 187303001245 G2 box; other site 187303001246 G3 box; other site 187303001247 Switch II region; other site 187303001248 G4 box; other site 187303001249 G5 box; other site 187303001250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 187303001251 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 187303001252 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 187303001253 Protein of unknown function DUF72; Region: DUF72; pfam01904 187303001254 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 187303001255 putative catalytic site [active] 187303001256 putative metal binding site [ion binding]; other site 187303001257 putative phosphate binding site [ion binding]; other site 187303001258 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 187303001259 putative substrate translocation pore; other site 187303001260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303001261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303001262 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 187303001263 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 187303001264 FeS/SAM binding site; other site 187303001265 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 187303001266 active site 187303001267 catalytic triad [active] 187303001268 oxyanion hole [active] 187303001269 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 187303001270 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 187303001271 Predicted membrane protein [Function unknown]; Region: COG1238 187303001272 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 187303001273 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 187303001274 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303001275 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 187303001276 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 187303001277 motif II; other site 187303001278 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187303001279 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303001280 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 187303001281 ArsC family; Region: ArsC; pfam03960 187303001282 putative catalytic residues [active] 187303001283 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 187303001284 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303001285 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 187303001286 C-terminal domain interface [polypeptide binding]; other site 187303001287 GSH binding site (G-site) [chemical binding]; other site 187303001288 dimer interface [polypeptide binding]; other site 187303001289 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 187303001290 N-terminal domain interface [polypeptide binding]; other site 187303001291 dimer interface [polypeptide binding]; other site 187303001292 substrate binding pocket (H-site) [chemical binding]; other site 187303001293 GAF domain; Region: GAF; pfam01590 187303001294 GAF domain; Region: GAF_2; pfam13185 187303001295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303001296 Histidine kinase; Region: HisKA_2; pfam07568 187303001297 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 187303001298 ATP binding site [chemical binding]; other site 187303001299 Mg2+ binding site [ion binding]; other site 187303001300 G-X-G motif; other site 187303001301 epoxyqueuosine reductase; Region: TIGR00276 187303001302 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 187303001303 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 187303001304 structural tetrad; other site 187303001305 FOG: WD40 repeat [General function prediction only]; Region: COG2319 187303001306 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 187303001307 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 187303001308 dimer interface [polypeptide binding]; other site 187303001309 substrate binding site [chemical binding]; other site 187303001310 ATP binding site [chemical binding]; other site 187303001311 Yqey-like protein; Region: YqeY; pfam09424 187303001312 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 187303001313 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 187303001314 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 187303001315 catalytic site [active] 187303001316 subunit interface [polypeptide binding]; other site 187303001317 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 187303001318 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 187303001319 salt bridge; other site 187303001320 non-specific DNA binding site [nucleotide binding]; other site 187303001321 sequence-specific DNA binding site [nucleotide binding]; other site 187303001322 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 187303001323 PemK-like protein; Region: PemK; pfam02452 187303001324 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 187303001325 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 187303001326 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 187303001327 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 187303001328 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 187303001329 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 187303001330 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 187303001331 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 187303001332 FeS/SAM binding site; other site 187303001333 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 187303001334 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 187303001335 PRC-barrel domain; Region: PRC; pfam05239 187303001336 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 187303001337 TPR repeat; Region: TPR_11; pfam13414 187303001338 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 187303001339 binding surface 187303001340 TPR motif; other site 187303001341 TPR repeat; Region: TPR_11; pfam13414 187303001342 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 187303001343 binding surface 187303001344 TPR motif; other site 187303001345 TPR repeat; Region: TPR_11; pfam13414 187303001346 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 187303001347 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 187303001348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303001349 Walker A/P-loop; other site 187303001350 ATP binding site [chemical binding]; other site 187303001351 Q-loop/lid; other site 187303001352 ABC transporter signature motif; other site 187303001353 Walker B; other site 187303001354 D-loop; other site 187303001355 H-loop/switch region; other site 187303001356 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 187303001357 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 187303001358 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 187303001359 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 187303001360 metal binding site [ion binding]; metal-binding site 187303001361 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 187303001362 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 187303001363 P-loop, Walker A motif; other site 187303001364 Base recognition motif; other site 187303001365 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 187303001366 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 187303001367 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 187303001368 active site 187303001369 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 187303001370 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 187303001371 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 187303001372 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 187303001373 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 187303001374 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 187303001375 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 187303001376 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 187303001377 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 187303001378 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 187303001379 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 187303001380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303001381 Walker A/P-loop; other site 187303001382 ATP binding site [chemical binding]; other site 187303001383 Q-loop/lid; other site 187303001384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303001385 ABC transporter signature motif; other site 187303001386 Walker B; other site 187303001387 D-loop; other site 187303001388 H-loop/switch region; other site 187303001389 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 187303001390 active site 187303001391 metal binding site [ion binding]; metal-binding site 187303001392 DNA binding site [nucleotide binding] 187303001393 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 187303001394 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 187303001395 active site 187303001396 AAA domain; Region: AAA_30; pfam13604 187303001397 Family description; Region: UvrD_C_2; pfam13538 187303001398 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 187303001399 HemN C-terminal domain; Region: HemN_C; pfam06969 187303001400 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 187303001401 IHF dimer interface [polypeptide binding]; other site 187303001402 IHF - DNA interface [nucleotide binding]; other site 187303001403 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 187303001404 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 187303001405 acyl-activating enzyme (AAE) consensus motif; other site 187303001406 AMP binding site [chemical binding]; other site 187303001407 active site 187303001408 CoA binding site [chemical binding]; other site 187303001409 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 187303001410 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 187303001411 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 187303001412 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303001413 active site 187303001414 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 187303001415 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 187303001416 Ligand Binding Site [chemical binding]; other site 187303001417 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 187303001418 S-adenosylmethionine binding site [chemical binding]; other site 187303001419 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 187303001420 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 187303001421 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 187303001422 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 187303001423 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 187303001424 putative dimer interface [polypeptide binding]; other site 187303001425 active site pocket [active] 187303001426 putative cataytic base [active] 187303001427 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 187303001428 DNA photolyase; Region: DNA_photolyase; pfam00875 187303001429 amino acid transporter; Region: 2A0306; TIGR00909 187303001430 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 187303001431 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 187303001432 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 187303001433 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 187303001434 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303001435 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 187303001436 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303001437 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 187303001438 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303001439 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 187303001440 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 187303001441 GDP-binding site [chemical binding]; other site 187303001442 ACT binding site; other site 187303001443 IMP binding site; other site 187303001444 KaiA domain; Region: KaiA; pfam07688 187303001445 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 187303001446 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 187303001447 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 187303001448 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 187303001449 NADP binding site [chemical binding]; other site 187303001450 dimer interface [polypeptide binding]; other site 187303001451 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 187303001452 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 187303001453 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 187303001454 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 187303001455 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 187303001456 putative dimer interface [polypeptide binding]; other site 187303001457 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 187303001458 Proline dehydrogenase; Region: Pro_dh; pfam01619 187303001459 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 187303001460 Glutamate binding site [chemical binding]; other site 187303001461 NAD binding site [chemical binding]; other site 187303001462 catalytic residues [active] 187303001463 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 187303001464 domain_subunit interface; other site 187303001465 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 187303001466 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 187303001467 FTR, proximal lobe; Region: FTR_C; pfam02741 187303001468 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 187303001469 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 187303001470 active site 187303001471 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 187303001472 molybdopterin cofactor binding site; other site 187303001473 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 187303001474 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303001475 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 187303001476 active site 187303001477 phosphorylation site [posttranslational modification] 187303001478 intermolecular recognition site; other site 187303001479 dimerization interface [polypeptide binding]; other site 187303001480 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 187303001481 DNA binding residues [nucleotide binding] 187303001482 dimerization interface [polypeptide binding]; other site 187303001483 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 187303001484 Mg2+ binding site [ion binding]; other site 187303001485 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 187303001486 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 187303001487 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303001488 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303001489 EF-hand domain pair; Region: EF_hand_5; pfam13499 187303001490 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; cl17302 187303001491 Ca2+ binding site [ion binding]; other site 187303001492 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 187303001493 ligand binding site [chemical binding]; other site 187303001494 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 187303001495 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 187303001496 structural tetrad; other site 187303001497 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303001498 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 187303001499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303001500 Walker A/P-loop; other site 187303001501 ATP binding site [chemical binding]; other site 187303001502 Q-loop/lid; other site 187303001503 ABC transporter signature motif; other site 187303001504 Walker B; other site 187303001505 D-loop; other site 187303001506 H-loop/switch region; other site 187303001507 ABC-2 type transporter; Region: ABC2_membrane; cl17235 187303001508 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303001509 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 187303001510 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 187303001511 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 187303001512 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 187303001513 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 187303001514 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 187303001515 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 187303001516 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 187303001517 active site 187303001518 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 187303001519 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 187303001520 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 187303001521 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 187303001522 ATP binding site [chemical binding]; other site 187303001523 Mg++ binding site [ion binding]; other site 187303001524 motif III; other site 187303001525 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 187303001526 nucleotide binding region [chemical binding]; other site 187303001527 ATP-binding site [chemical binding]; other site 187303001528 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 187303001529 MgtC family; Region: MgtC; pfam02308 187303001530 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 187303001531 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303001532 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303001533 ABC transporter; Region: ABC_tran_2; pfam12848 187303001534 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303001535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303001536 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 187303001537 dimer interface [polypeptide binding]; other site 187303001538 phosphorylation site [posttranslational modification] 187303001539 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 187303001540 ATP binding site [chemical binding]; other site 187303001541 Mg2+ binding site [ion binding]; other site 187303001542 G-X-G motif; other site 187303001543 Response regulator receiver domain; Region: Response_reg; pfam00072 187303001544 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 187303001545 active site 187303001546 phosphorylation site [posttranslational modification] 187303001547 intermolecular recognition site; other site 187303001548 dimerization interface [polypeptide binding]; other site 187303001549 circadian clock protein KaiC; Reviewed; Region: PRK09302 187303001550 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303001551 Walker A motif; other site 187303001552 ATP binding site [chemical binding]; other site 187303001553 Walker B motif; other site 187303001554 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303001555 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303001556 Walker A motif; other site 187303001557 Walker A motif; other site 187303001558 ATP binding site [chemical binding]; other site 187303001559 Walker B motif; other site 187303001560 DNA-sulfur modification-associated; Region: DndB; cl17621 187303001561 DGQHR domain; Region: DGQHR; TIGR03187 187303001562 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 187303001563 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 187303001564 DXD motif; other site 187303001565 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187303001566 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 187303001567 substrate binding pocket [chemical binding]; other site 187303001568 membrane-bound complex binding site; other site 187303001569 hinge residues; other site 187303001570 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 187303001571 putative binding surface; other site 187303001572 active site 187303001573 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 187303001574 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 187303001575 [2Fe-2S] cluster binding site [ion binding]; other site 187303001576 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 187303001577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303001578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303001579 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 187303001580 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 187303001581 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 187303001582 Predicted helicase [General function prediction only]; Region: COG4889 187303001583 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 187303001584 dimer interface [polypeptide binding]; other site 187303001585 [2Fe-2S] cluster binding site [ion binding]; other site 187303001586 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 187303001587 ATP-NAD kinase; Region: NAD_kinase; pfam01513 187303001588 fructokinase; Reviewed; Region: PRK09557 187303001589 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 187303001590 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 187303001591 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 187303001592 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187303001593 Uncharacterized conserved protein [Function unknown]; Region: COG3743 187303001594 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 187303001595 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187303001596 ligand binding site [chemical binding]; other site 187303001597 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 187303001598 RNA/DNA hybrid binding site [nucleotide binding]; other site 187303001599 active site 187303001600 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 187303001601 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 187303001602 putative active site [active] 187303001603 putative substrate binding site [chemical binding]; other site 187303001604 ATP binding site [chemical binding]; other site 187303001605 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 187303001606 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 187303001607 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 187303001608 glutamate--cysteine ligase; Region: PLN02611 187303001609 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 187303001610 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 187303001611 UbiA prenyltransferase family; Region: UbiA; pfam01040 187303001612 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 187303001613 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 187303001614 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303001615 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 187303001616 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 187303001617 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 187303001618 Walker A/P-loop; other site 187303001619 ATP binding site [chemical binding]; other site 187303001620 Q-loop/lid; other site 187303001621 ABC transporter signature motif; other site 187303001622 Walker B; other site 187303001623 D-loop; other site 187303001624 H-loop/switch region; other site 187303001625 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 187303001626 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303001627 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303001628 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 187303001629 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 187303001630 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 187303001631 Uncharacterized conserved protein [Function unknown]; Region: COG1434 187303001632 putative active site [active] 187303001633 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303001634 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 187303001635 active site 187303001636 phosphorylation site [posttranslational modification] 187303001637 intermolecular recognition site; other site 187303001638 dimerization interface [polypeptide binding]; other site 187303001639 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 187303001640 DNA binding residues [nucleotide binding] 187303001641 dimerization interface [polypeptide binding]; other site 187303001642 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 187303001643 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 187303001644 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 187303001645 active site residue [active] 187303001646 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 187303001647 active site residue [active] 187303001648 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 187303001649 Nitrogen regulatory protein P-II; Region: P-II; smart00938 187303001650 glutamine synthetase; Provisional; Region: glnA; PRK09469 187303001651 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 187303001652 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 187303001653 PBP superfamily domain; Region: PBP_like_2; cl17296 187303001654 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 187303001655 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 187303001656 S-adenosylmethionine binding site [chemical binding]; other site 187303001657 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 187303001658 prephenate dehydrogenase; Validated; Region: PRK08507 187303001659 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 187303001660 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 187303001661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303001662 homodimer interface [polypeptide binding]; other site 187303001663 catalytic residue [active] 187303001664 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 187303001665 oligomeric interface; other site 187303001666 putative active site [active] 187303001667 homodimer interface [polypeptide binding]; other site 187303001668 hypothetical protein; Provisional; Region: PRK06034 187303001669 Chorismate mutase type II; Region: CM_2; pfam01817 187303001670 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 187303001671 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 187303001672 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 187303001673 Walker A/P-loop; other site 187303001674 ATP binding site [chemical binding]; other site 187303001675 Q-loop/lid; other site 187303001676 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 187303001677 ABC transporter signature motif; other site 187303001678 Walker B; other site 187303001679 D-loop; other site 187303001680 H-loop/switch region; other site 187303001681 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 187303001682 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 187303001683 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 187303001684 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 187303001685 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 187303001686 nucleotide binding site [chemical binding]; other site 187303001687 SulA interaction site; other site 187303001688 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 187303001689 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 187303001690 Cell division protein FtsA; Region: FtsA; smart00842 187303001691 Cell division protein FtsA; Region: FtsA; pfam14450 187303001692 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 187303001693 Cell division protein FtsQ; Region: FtsQ; pfam03799 187303001694 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 187303001695 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 187303001696 ATP-grasp domain; Region: ATP-grasp_4; cl17255 187303001697 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 187303001698 FAD binding domain; Region: FAD_binding_4; pfam01565 187303001699 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 187303001700 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 187303001701 Predicted transcriptional regulator [Transcription]; Region: COG3905 187303001702 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 187303001703 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187303001704 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187303001705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187303001706 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 187303001707 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 187303001708 active site 187303001709 homodimer interface [polypeptide binding]; other site 187303001710 cell division protein FtsW; Region: ftsW; TIGR02614 187303001711 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 187303001712 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 187303001713 NAD binding site [chemical binding]; other site 187303001714 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 187303001715 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 187303001716 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 187303001717 Mg++ binding site [ion binding]; other site 187303001718 putative catalytic motif [active] 187303001719 putative substrate binding site [chemical binding]; other site 187303001720 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 187303001721 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187303001722 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187303001723 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 187303001724 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 187303001725 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187303001726 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 187303001727 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 187303001728 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 187303001729 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 187303001730 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 187303001731 MraW methylase family; Region: Methyltransf_5; cl17771 187303001732 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 187303001733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303001734 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187303001735 Coenzyme A binding pocket [chemical binding]; other site 187303001736 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 187303001737 primosome assembly protein PriA; Validated; Region: PRK05580 187303001738 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 187303001739 ATP binding site [chemical binding]; other site 187303001740 putative Mg++ binding site [ion binding]; other site 187303001741 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 187303001742 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 187303001743 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 187303001744 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303001745 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 187303001746 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303001747 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl17183 187303001748 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 187303001749 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303001750 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 187303001751 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 187303001752 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 187303001753 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 187303001754 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 187303001755 Walker A/P-loop; other site 187303001756 ATP binding site [chemical binding]; other site 187303001757 Q-loop/lid; other site 187303001758 ABC transporter signature motif; other site 187303001759 Walker B; other site 187303001760 D-loop; other site 187303001761 H-loop/switch region; other site 187303001762 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 187303001763 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 187303001764 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 187303001765 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 187303001766 glutaminase active site [active] 187303001767 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 187303001768 dimer interface [polypeptide binding]; other site 187303001769 active site 187303001770 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 187303001771 dimer interface [polypeptide binding]; other site 187303001772 active site 187303001773 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 187303001774 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 187303001775 Substrate binding site; other site 187303001776 Mg++ binding site; other site 187303001777 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 187303001778 active site 187303001779 substrate binding site [chemical binding]; other site 187303001780 CoA binding site [chemical binding]; other site 187303001781 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 187303001782 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 187303001783 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 187303001784 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 187303001785 Ligand binding site; other site 187303001786 DXD motif; other site 187303001787 Protein of unknown function (DUF952); Region: DUF952; cl01393 187303001788 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 187303001789 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 187303001790 quinone interaction residues [chemical binding]; other site 187303001791 active site 187303001792 catalytic residues [active] 187303001793 FMN binding site [chemical binding]; other site 187303001794 substrate binding site [chemical binding]; other site 187303001795 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 187303001796 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 187303001797 hypothetical protein; Provisional; Region: PRK05409 187303001798 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 187303001799 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 187303001800 RNA binding site [nucleotide binding]; other site 187303001801 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 187303001802 RNA binding site [nucleotide binding]; other site 187303001803 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 187303001804 RNA binding site [nucleotide binding]; other site 187303001805 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 187303001806 RNA binding site [nucleotide binding]; other site 187303001807 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 187303001808 RNA binding site [nucleotide binding]; other site 187303001809 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 187303001810 RNA binding site [nucleotide binding]; other site 187303001811 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 187303001812 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 187303001813 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 187303001814 RNA binding surface [nucleotide binding]; other site 187303001815 Thioredoxin; Region: Thioredoxin_4; pfam13462 187303001816 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 187303001817 recombination protein RecR; Reviewed; Region: recR; PRK00076 187303001818 RecR protein; Region: RecR; pfam02132 187303001819 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 187303001820 putative active site [active] 187303001821 putative metal-binding site [ion binding]; other site 187303001822 tetramer interface [polypeptide binding]; other site 187303001823 hypothetical protein; Validated; Region: PRK00153 187303001824 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 187303001825 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 187303001826 Walker A motif; other site 187303001827 ATP binding site [chemical binding]; other site 187303001828 Walker B motif; other site 187303001829 arginine finger; other site 187303001830 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 187303001831 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 187303001832 Hemerythrin-like domain; Region: Hr-like; cd12108 187303001833 Fe binding site [ion binding]; other site 187303001834 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 187303001835 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187303001836 motif 1; other site 187303001837 dimer interface [polypeptide binding]; other site 187303001838 active site 187303001839 motif 2; other site 187303001840 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187303001841 active site 187303001842 motif 3; other site 187303001843 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 187303001844 ATP phosphoribosyltransferase; Region: HisG; cl15266 187303001845 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 187303001846 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 187303001847 putative active site [active] 187303001848 Zn binding site [ion binding]; other site 187303001849 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 187303001850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303001851 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187303001852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303001853 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 187303001854 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 187303001855 DNA binding site [nucleotide binding] 187303001856 active site 187303001857 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 187303001858 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 187303001859 FeS/SAM binding site; other site 187303001860 HemN C-terminal domain; Region: HemN_C; pfam06969 187303001861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187303001862 Coenzyme A binding pocket [chemical binding]; other site 187303001863 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 187303001864 acyl-CoA synthetase; Validated; Region: PRK09192 187303001865 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 187303001866 acyl-activating enzyme (AAE) consensus motif; other site 187303001867 active site 187303001868 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 187303001869 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187303001870 putative acyl-acceptor binding pocket; other site 187303001871 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 187303001872 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 187303001873 Tetramer interface [polypeptide binding]; other site 187303001874 active site 187303001875 FMN-binding site [chemical binding]; other site 187303001876 DNA polymerase I; Provisional; Region: PRK05755 187303001877 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 187303001878 active site 187303001879 metal binding site 1 [ion binding]; metal-binding site 187303001880 putative 5' ssDNA interaction site; other site 187303001881 metal binding site 3; metal-binding site 187303001882 metal binding site 2 [ion binding]; metal-binding site 187303001883 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 187303001884 putative DNA binding site [nucleotide binding]; other site 187303001885 putative metal binding site [ion binding]; other site 187303001886 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 187303001887 active site 187303001888 catalytic site [active] 187303001889 substrate binding site [chemical binding]; other site 187303001890 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 187303001891 active site 187303001892 DNA binding site [nucleotide binding] 187303001893 catalytic site [active] 187303001894 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 187303001895 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 187303001896 CysD dimerization site [polypeptide binding]; other site 187303001897 G1 box; other site 187303001898 putative GEF interaction site [polypeptide binding]; other site 187303001899 GTP/Mg2+ binding site [chemical binding]; other site 187303001900 Switch I region; other site 187303001901 G2 box; other site 187303001902 G3 box; other site 187303001903 Switch II region; other site 187303001904 G4 box; other site 187303001905 G5 box; other site 187303001906 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 187303001907 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 187303001908 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 187303001909 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 187303001910 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 187303001911 Active Sites [active] 187303001912 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 187303001913 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 187303001914 Active Sites [active] 187303001915 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 187303001916 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 187303001917 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303001918 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303001919 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 187303001920 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 187303001921 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 187303001922 catalytic loop [active] 187303001923 iron binding site [ion binding]; other site 187303001924 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303001925 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 187303001926 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 187303001927 active site 187303001928 catalytic tetrad [active] 187303001929 Predicted acetyltransferase [General function prediction only]; Region: COG3153 187303001930 hypothetical protein; Validated; Region: PRK00228 187303001931 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 187303001932 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 187303001933 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 187303001934 active site 187303001935 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 187303001936 active site 187303001937 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 187303001938 short chain dehydrogenase; Provisional; Region: PRK07024 187303001939 classical (c) SDRs; Region: SDR_c; cd05233 187303001940 NAD(P) binding site [chemical binding]; other site 187303001941 active site 187303001942 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 187303001943 active site 2 [active] 187303001944 active site 1 [active] 187303001945 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 187303001946 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 187303001947 dimer interface [polypeptide binding]; other site 187303001948 active site 187303001949 Phosphopantetheine attachment site; Region: PP-binding; cl09936 187303001950 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 187303001951 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 187303001952 heterodimer interface [polypeptide binding]; other site 187303001953 substrate interaction site [chemical binding]; other site 187303001954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 187303001955 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303001956 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303001957 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 187303001958 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 187303001959 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 187303001960 RDD family; Region: RDD; pfam06271 187303001961 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 187303001962 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 187303001963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 187303001964 AAA domain; Region: AAA_17; pfam13207 187303001965 Predicted kinase [General function prediction only]; Region: COG0645 187303001966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303001967 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303001968 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303001969 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 187303001970 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 187303001971 putative NAD(P) binding site [chemical binding]; other site 187303001972 putative substrate binding site [chemical binding]; other site 187303001973 catalytic Zn binding site [ion binding]; other site 187303001974 structural Zn binding site [ion binding]; other site 187303001975 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 187303001976 NodB motif; other site 187303001977 putative active site [active] 187303001978 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 187303001979 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 187303001980 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 187303001981 SEC-C motif; Region: SEC-C; pfam02810 187303001982 6-phosphofructokinase; Provisional; Region: PRK14072 187303001983 allosteric effector site; other site 187303001984 dimerization interface [polypeptide binding]; other site 187303001985 active site 187303001986 ADP/pyrophosphate binding site [chemical binding]; other site 187303001987 fructose-1,6-bisphosphate binding site; other site 187303001988 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 187303001989 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 187303001990 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 187303001991 Walker A motif; other site 187303001992 ATP binding site [chemical binding]; other site 187303001993 Walker B motif; other site 187303001994 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 187303001995 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 187303001996 Found in ATP-dependent protease La (LON); Region: LON; smart00464 187303001997 Found in ATP-dependent protease La (LON); Region: LON; smart00464 187303001998 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 187303001999 Walker A motif; other site 187303002000 ATP binding site [chemical binding]; other site 187303002001 Walker B motif; other site 187303002002 arginine finger; other site 187303002003 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 187303002004 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 187303002005 IHF dimer interface [polypeptide binding]; other site 187303002006 IHF - DNA interface [nucleotide binding]; other site 187303002007 Predicted periplasmic protein [Function unknown]; Region: COG3904 187303002008 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 187303002009 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 187303002010 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 187303002011 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 187303002012 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303002013 catalytic residues [active] 187303002014 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 187303002015 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 187303002016 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 187303002017 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 187303002018 dimer interface [polypeptide binding]; other site 187303002019 conserved gate region; other site 187303002020 putative PBP binding loops; other site 187303002021 ABC-ATPase subunit interface; other site 187303002022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303002023 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 187303002024 Walker A/P-loop; other site 187303002025 ATP binding site [chemical binding]; other site 187303002026 Q-loop/lid; other site 187303002027 ABC transporter signature motif; other site 187303002028 Walker B; other site 187303002029 D-loop; other site 187303002030 H-loop/switch region; other site 187303002031 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 187303002032 Predicted membrane protein [Function unknown]; Region: COG3174 187303002033 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 187303002034 Protein of unknown function (DUF419); Region: DUF419; pfam04237 187303002035 aspartate aminotransferase; Provisional; Region: PRK05764 187303002036 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 187303002037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303002038 homodimer interface [polypeptide binding]; other site 187303002039 catalytic residue [active] 187303002040 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 187303002041 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 187303002042 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 187303002043 AMIN domain; Region: AMIN; pfam11741 187303002044 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 187303002045 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 187303002046 active site 187303002047 metal binding site [ion binding]; metal-binding site 187303002048 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 187303002049 Transglycosylase; Region: Transgly; pfam00912 187303002050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 187303002051 enoyl-CoA hydratase; Validated; Region: PRK08139 187303002052 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 187303002053 substrate binding site [chemical binding]; other site 187303002054 oxyanion hole (OAH) forming residues; other site 187303002055 trimer interface [polypeptide binding]; other site 187303002056 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 187303002057 heme exporter protein CcmB; Region: ccmB; TIGR01190 187303002058 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 187303002059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303002060 Walker A/P-loop; other site 187303002061 ATP binding site [chemical binding]; other site 187303002062 Q-loop/lid; other site 187303002063 ABC transporter signature motif; other site 187303002064 Walker B; other site 187303002065 D-loop; other site 187303002066 H-loop/switch region; other site 187303002067 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 187303002068 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 187303002069 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303002070 catalytic residue [active] 187303002071 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 187303002072 Fatty acid desaturase; Region: FA_desaturase; pfam00487 187303002073 putative di-iron ligands [ion binding]; other site 187303002074 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 187303002075 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 187303002076 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 187303002077 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 187303002078 nucleotide binding pocket [chemical binding]; other site 187303002079 K-X-D-G motif; other site 187303002080 catalytic site [active] 187303002081 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 187303002082 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 187303002083 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 187303002084 Dimer interface [polypeptide binding]; other site 187303002085 BRCT sequence motif; other site 187303002086 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 187303002087 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 187303002088 putative catalytic residue [active] 187303002089 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 187303002090 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 187303002091 PAS fold; Region: PAS_3; pfam08447 187303002092 putative active site [active] 187303002093 heme pocket [chemical binding]; other site 187303002094 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 187303002095 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187303002096 metal binding site [ion binding]; metal-binding site 187303002097 active site 187303002098 I-site; other site 187303002099 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 187303002100 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 187303002101 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 187303002102 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 187303002103 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 187303002104 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 187303002105 peptide chain release factor 1; Validated; Region: prfA; PRK00591 187303002106 This domain is found in peptide chain release factors; Region: PCRF; smart00937 187303002107 RF-1 domain; Region: RF-1; pfam00472 187303002108 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 187303002109 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 187303002110 purine monophosphate binding site [chemical binding]; other site 187303002111 dimer interface [polypeptide binding]; other site 187303002112 putative catalytic residues [active] 187303002113 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 187303002114 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 187303002115 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 187303002116 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 187303002117 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 187303002118 trimer interface [polypeptide binding]; other site 187303002119 putative metal binding site [ion binding]; other site 187303002120 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 187303002121 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 187303002122 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 187303002123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 187303002124 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 187303002125 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 187303002126 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 187303002127 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 187303002128 Predicted ATPase [General function prediction only]; Region: COG4637 187303002129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 187303002130 Walker A/P-loop; other site 187303002131 ATP binding site [chemical binding]; other site 187303002132 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 187303002133 adenylosuccinate lyase; Provisional; Region: PRK07492 187303002134 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 187303002135 tetramer interface [polypeptide binding]; other site 187303002136 active site 187303002137 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 187303002138 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 187303002139 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 187303002140 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 187303002141 hydroxyglutarate oxidase; Provisional; Region: PRK11728 187303002142 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 187303002143 heat shock protein 90; Provisional; Region: PRK05218 187303002144 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 187303002145 ATP binding site [chemical binding]; other site 187303002146 Mg2+ binding site [ion binding]; other site 187303002147 G-X-G motif; other site 187303002148 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 187303002149 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 187303002150 S-adenosylmethionine binding site [chemical binding]; other site 187303002151 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 187303002152 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 187303002153 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 187303002154 MOSC domain; Region: MOSC; pfam03473 187303002155 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 187303002156 Clp amino terminal domain; Region: Clp_N; pfam02861 187303002157 Clp amino terminal domain; Region: Clp_N; pfam02861 187303002158 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 187303002159 Walker A motif; other site 187303002160 ATP binding site [chemical binding]; other site 187303002161 Walker B motif; other site 187303002162 arginine finger; other site 187303002163 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 187303002164 Walker A motif; other site 187303002165 ATP binding site [chemical binding]; other site 187303002166 Walker B motif; other site 187303002167 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187303002168 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 187303002169 pantothenate kinase; Provisional; Region: PRK05439 187303002170 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 187303002171 ATP-binding site [chemical binding]; other site 187303002172 CoA-binding site [chemical binding]; other site 187303002173 Mg2+-binding site [ion binding]; other site 187303002174 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 187303002175 metal binding site [ion binding]; metal-binding site 187303002176 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 187303002177 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 187303002178 substrate binding site [chemical binding]; other site 187303002179 glutamase interaction surface [polypeptide binding]; other site 187303002180 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 187303002181 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 187303002182 catalytic residues [active] 187303002183 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 187303002184 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 187303002185 putative active site [active] 187303002186 oxyanion strand; other site 187303002187 catalytic triad [active] 187303002188 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 187303002189 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 187303002190 putative active site pocket [active] 187303002191 4-fold oligomerization interface [polypeptide binding]; other site 187303002192 metal binding residues [ion binding]; metal-binding site 187303002193 3-fold/trimer interface [polypeptide binding]; other site 187303002194 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 187303002195 active site 187303002196 HslU subunit interaction site [polypeptide binding]; other site 187303002197 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 187303002198 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 187303002199 Walker A motif; other site 187303002200 ATP binding site [chemical binding]; other site 187303002201 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 187303002202 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 187303002203 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 187303002204 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 187303002205 active site 187303002206 HIGH motif; other site 187303002207 dimer interface [polypeptide binding]; other site 187303002208 KMSKS motif; other site 187303002209 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 187303002210 Cysteine-rich domain; Region: CCG; pfam02754 187303002211 Cysteine-rich domain; Region: CCG; pfam02754 187303002212 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 187303002213 FAD binding domain; Region: FAD_binding_4; pfam01565 187303002214 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 187303002215 FAD binding domain; Region: FAD_binding_4; pfam01565 187303002216 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303002217 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 187303002218 active site 187303002219 phosphorylation site [posttranslational modification] 187303002220 intermolecular recognition site; other site 187303002221 dimerization interface [polypeptide binding]; other site 187303002222 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 187303002223 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 187303002224 nickel binding site [ion binding]; other site 187303002225 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 187303002226 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 187303002227 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 187303002228 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 187303002229 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 187303002230 FAD binding pocket [chemical binding]; other site 187303002231 FAD binding motif [chemical binding]; other site 187303002232 phosphate binding motif [ion binding]; other site 187303002233 beta-alpha-beta structure motif; other site 187303002234 NAD binding pocket [chemical binding]; other site 187303002235 Iron coordination center [ion binding]; other site 187303002236 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303002237 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 187303002238 ligand binding site [chemical binding]; other site 187303002239 flexible hinge region; other site 187303002240 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 187303002241 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 187303002242 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 187303002243 FtsH Extracellular; Region: FtsH_ext; pfam06480 187303002244 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 187303002245 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 187303002246 Walker A motif; other site 187303002247 ATP binding site [chemical binding]; other site 187303002248 Walker B motif; other site 187303002249 arginine finger; other site 187303002250 Peptidase family M41; Region: Peptidase_M41; pfam01434 187303002251 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 187303002252 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 187303002253 conserved cys residue [active] 187303002254 HTH domain; Region: HTH_11; cl17392 187303002255 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 187303002256 PAS domain; Region: PAS_9; pfam13426 187303002257 putative active site [active] 187303002258 heme pocket [chemical binding]; other site 187303002259 Autoinducer synthetase; Region: Autoind_synth; cl17404 187303002260 Autoinducer binding domain; Region: Autoind_bind; pfam03472 187303002261 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 187303002262 DNA binding residues [nucleotide binding] 187303002263 dimerization interface [polypeptide binding]; other site 187303002264 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303002265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 187303002266 PAS domain; Region: PAS_5; pfam07310 187303002267 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 187303002268 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 187303002269 FOG: CBS domain [General function prediction only]; Region: COG0517 187303002270 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 187303002271 nucleophile elbow; other site 187303002272 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 187303002273 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 187303002274 GTP cyclohydrolase I; Provisional; Region: PLN03044 187303002275 active site 187303002276 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 187303002277 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 187303002278 trimerization site [polypeptide binding]; other site 187303002279 active site 187303002280 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 187303002281 active site 187303002282 putative DNA-binding cleft [nucleotide binding]; other site 187303002283 dimer interface [polypeptide binding]; other site 187303002284 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 187303002285 RuvA N terminal domain; Region: RuvA_N; pfam01330 187303002286 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 187303002287 putative active site [active] 187303002288 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 187303002289 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 187303002290 Walker A motif; other site 187303002291 ATP binding site [chemical binding]; other site 187303002292 Walker B motif; other site 187303002293 arginine finger; other site 187303002294 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 187303002295 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 187303002296 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 187303002297 active site residue [active] 187303002298 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 187303002299 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 187303002300 dimer interface [polypeptide binding]; other site 187303002301 decamer (pentamer of dimers) interface [polypeptide binding]; other site 187303002302 catalytic triad [active] 187303002303 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 187303002304 active site 187303002305 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 187303002306 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 187303002307 active site 187303002308 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 187303002309 dimer interface [polypeptide binding]; other site 187303002310 substrate binding site [chemical binding]; other site 187303002311 catalytic residues [active] 187303002312 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 187303002313 active site 187303002314 dimer interface [polypeptide binding]; other site 187303002315 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 187303002316 rRNA binding site [nucleotide binding]; other site 187303002317 predicted 30S ribosome binding site; other site 187303002318 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 187303002319 oligomeric interface; other site 187303002320 homodimer interface [polypeptide binding]; other site 187303002321 putative active site [active] 187303002322 excinuclease ABC subunit B; Provisional; Region: PRK05298 187303002323 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 187303002324 ATP binding site [chemical binding]; other site 187303002325 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 187303002326 nucleotide binding region [chemical binding]; other site 187303002327 ATP-binding site [chemical binding]; other site 187303002328 Ultra-violet resistance protein B; Region: UvrB; pfam12344 187303002329 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 187303002330 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 187303002331 putative active site [active] 187303002332 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 187303002333 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 187303002334 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 187303002335 Walker A/P-loop; other site 187303002336 ATP binding site [chemical binding]; other site 187303002337 Q-loop/lid; other site 187303002338 ABC transporter signature motif; other site 187303002339 Walker B; other site 187303002340 D-loop; other site 187303002341 H-loop/switch region; other site 187303002342 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 187303002343 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 187303002344 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 187303002345 active site 187303002346 catalytic residues [active] 187303002347 metal binding site [ion binding]; metal-binding site 187303002348 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 187303002349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303002350 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 187303002351 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 187303002352 active site 187303002353 HIGH motif; other site 187303002354 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 187303002355 KMSKS motif; other site 187303002356 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 187303002357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 187303002358 CreA protein; Region: CreA; pfam05981 187303002359 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 187303002360 PAS domain; Region: PAS_9; pfam13426 187303002361 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 187303002362 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303002363 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 187303002364 dimer interface [polypeptide binding]; other site 187303002365 phosphorylation site [posttranslational modification] 187303002366 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 187303002367 ATP binding site [chemical binding]; other site 187303002368 Mg2+ binding site [ion binding]; other site 187303002369 G-X-G motif; other site 187303002370 Response regulator receiver domain; Region: Response_reg; pfam00072 187303002371 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 187303002372 active site 187303002373 phosphorylation site [posttranslational modification] 187303002374 intermolecular recognition site; other site 187303002375 dimerization interface [polypeptide binding]; other site 187303002376 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 187303002377 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 187303002378 isocitrate dehydrogenase; Validated; Region: PRK08299 187303002379 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 187303002380 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 187303002381 SnoaL-like domain; Region: SnoaL_3; pfam13474 187303002382 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 187303002383 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 187303002384 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 187303002385 Glycoprotease family; Region: Peptidase_M22; pfam00814 187303002386 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 187303002387 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 187303002388 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 187303002389 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 187303002390 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 187303002391 FeS/SAM binding site; other site 187303002392 TRAM domain; Region: TRAM; cl01282 187303002393 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 187303002394 PhoH-like protein; Region: PhoH; pfam02562 187303002395 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 187303002396 FOG: CBS domain [General function prediction only]; Region: COG0517 187303002397 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 187303002398 Transporter associated domain; Region: CorC_HlyC; pfam03471 187303002399 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 187303002400 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 187303002401 putative active site [active] 187303002402 catalytic triad [active] 187303002403 putative dimer interface [polypeptide binding]; other site 187303002404 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303002405 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 187303002406 non-specific DNA binding site [nucleotide binding]; other site 187303002407 salt bridge; other site 187303002408 sequence-specific DNA binding site [nucleotide binding]; other site 187303002409 S-adenosylmethionine synthetase; Validated; Region: PRK05250 187303002410 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 187303002411 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 187303002412 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 187303002413 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 187303002414 S-adenosylmethionine binding site [chemical binding]; other site 187303002415 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 187303002416 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 187303002417 catalytic residues [active] 187303002418 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 187303002419 Uncharacterized conserved protein [Function unknown]; Region: COG2835 187303002420 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 187303002421 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 187303002422 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 187303002423 catalytic triad [active] 187303002424 dimer interface [polypeptide binding]; other site 187303002425 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 187303002426 Nitrogen regulatory protein P-II; Region: P-II; smart00938 187303002427 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 187303002428 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 187303002429 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 187303002430 active site 187303002431 metal binding site [ion binding]; metal-binding site 187303002432 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 187303002433 succinic semialdehyde dehydrogenase; Region: PLN02278 187303002434 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 187303002435 tetramerization interface [polypeptide binding]; other site 187303002436 NAD(P) binding site [chemical binding]; other site 187303002437 catalytic residues [active] 187303002438 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187303002439 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 187303002440 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 187303002441 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 187303002442 dimer interface [polypeptide binding]; other site 187303002443 conserved gate region; other site 187303002444 putative PBP binding loops; other site 187303002445 ABC-ATPase subunit interface; other site 187303002446 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 187303002447 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 187303002448 dimer interface [polypeptide binding]; other site 187303002449 conserved gate region; other site 187303002450 ABC-ATPase subunit interface; other site 187303002451 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1848 187303002452 putative active site [active] 187303002453 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 187303002454 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 187303002455 Walker A/P-loop; other site 187303002456 ATP binding site [chemical binding]; other site 187303002457 Q-loop/lid; other site 187303002458 ABC transporter signature motif; other site 187303002459 Walker B; other site 187303002460 D-loop; other site 187303002461 H-loop/switch region; other site 187303002462 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 187303002463 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 187303002464 Walker A/P-loop; other site 187303002465 ATP binding site [chemical binding]; other site 187303002466 Q-loop/lid; other site 187303002467 ABC transporter signature motif; other site 187303002468 Walker B; other site 187303002469 D-loop; other site 187303002470 H-loop/switch region; other site 187303002471 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 187303002472 active site 2 [active] 187303002473 active site 1 [active] 187303002474 Bacterial SH3 domain; Region: SH3_4; pfam06347 187303002475 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 187303002476 NlpC/P60 family; Region: NLPC_P60; cl17555 187303002477 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 187303002478 interface (dimer of trimers) [polypeptide binding]; other site 187303002479 Substrate-binding/catalytic site; other site 187303002480 Zn-binding sites [ion binding]; other site 187303002481 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 187303002482 Nitrogen regulatory protein P-II; Region: P-II; smart00938 187303002483 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 187303002484 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 187303002485 23S rRNA interface [nucleotide binding]; other site 187303002486 L3 interface [polypeptide binding]; other site 187303002487 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 187303002488 metabolite-proton symporter; Region: 2A0106; TIGR00883 187303002489 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 187303002490 putative substrate translocation pore; other site 187303002491 recombinase A; Provisional; Region: recA; PRK09354 187303002492 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 187303002493 hexamer interface [polypeptide binding]; other site 187303002494 Walker A motif; other site 187303002495 ATP binding site [chemical binding]; other site 187303002496 Walker B motif; other site 187303002497 Domain of unknown function (DUF1873); Region: DUF1873; pfam08969 187303002498 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303002499 active site 187303002500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 187303002501 Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the...; Region: KAZAL_FS; cd00104 187303002502 Kazal-type serine protease inhibitor domain; Region: Kazal_1; pfam00050 187303002503 CrcB-like protein; Region: CRCB; cl09114 187303002504 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 187303002505 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 187303002506 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 187303002507 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 187303002508 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 187303002509 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 187303002510 GTPase CgtA; Reviewed; Region: obgE; PRK12299 187303002511 GTP1/OBG; Region: GTP1_OBG; pfam01018 187303002512 Obg GTPase; Region: Obg; cd01898 187303002513 G1 box; other site 187303002514 GTP/Mg2+ binding site [chemical binding]; other site 187303002515 Switch I region; other site 187303002516 G2 box; other site 187303002517 G3 box; other site 187303002518 Switch II region; other site 187303002519 G4 box; other site 187303002520 G5 box; other site 187303002521 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 187303002522 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 187303002523 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 187303002524 S-adenosylmethionine binding site [chemical binding]; other site 187303002525 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 187303002526 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 187303002527 active site 187303002528 Zn binding site [ion binding]; other site 187303002529 Transglycosylase SLT domain; Region: SLT_2; pfam13406 187303002530 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303002531 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303002532 catalytic residue [active] 187303002533 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303002534 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 187303002535 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 187303002536 metal binding site 2 [ion binding]; metal-binding site 187303002537 putative DNA binding helix; other site 187303002538 metal binding site 1 [ion binding]; metal-binding site 187303002539 dimer interface [polypeptide binding]; other site 187303002540 structural Zn2+ binding site [ion binding]; other site 187303002541 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 187303002542 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 187303002543 catalytic triad [active] 187303002544 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 187303002545 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 187303002546 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 187303002547 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 187303002548 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 187303002549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303002550 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 187303002551 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 187303002552 23S rRNA binding site [nucleotide binding]; other site 187303002553 L21 binding site [polypeptide binding]; other site 187303002554 L13 binding site [polypeptide binding]; other site 187303002555 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 187303002556 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 187303002557 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 187303002558 Pirin-related protein [General function prediction only]; Region: COG1741 187303002559 Pirin; Region: Pirin; pfam02678 187303002560 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 187303002561 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 187303002562 dimer interface [polypeptide binding]; other site 187303002563 phosphorylation site [posttranslational modification] 187303002564 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 187303002565 ATP binding site [chemical binding]; other site 187303002566 Mg2+ binding site [ion binding]; other site 187303002567 G-X-G motif; other site 187303002568 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303002569 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 187303002570 active site 187303002571 phosphorylation site [posttranslational modification] 187303002572 intermolecular recognition site; other site 187303002573 dimerization interface [polypeptide binding]; other site 187303002574 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 187303002575 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 187303002576 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 187303002577 Walker A motif; other site 187303002578 ATP binding site [chemical binding]; other site 187303002579 Walker B motif; other site 187303002580 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 187303002581 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 187303002582 trimer interface [polypeptide binding]; other site 187303002583 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 187303002584 trimer interface [polypeptide binding]; other site 187303002585 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 187303002586 trimer interface [polypeptide binding]; other site 187303002587 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 187303002588 trimer interface [polypeptide binding]; other site 187303002589 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 187303002590 trimer interface [polypeptide binding]; other site 187303002591 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 187303002592 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303002593 S-adenosylmethionine binding site [chemical binding]; other site 187303002594 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 187303002595 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 187303002596 Domain of unknown function DUF20; Region: UPF0118; pfam01594 187303002597 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303002598 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 187303002599 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187303002600 MgtC family; Region: MgtC; pfam02308 187303002601 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 187303002602 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 187303002603 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 187303002604 D-pathway; other site 187303002605 Low-spin heme binding site [chemical binding]; other site 187303002606 Putative water exit pathway; other site 187303002607 Binuclear center (active site) [active] 187303002608 K-pathway; other site 187303002609 Putative proton exit pathway; other site 187303002610 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 187303002611 Subunit I/III interface [polypeptide binding]; other site 187303002612 phosphoenolpyruvate synthase; Validated; Region: PRK06464 187303002613 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 187303002614 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 187303002615 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 187303002616 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 187303002617 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187303002618 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187303002619 Cupin domain; Region: Cupin_2; cl17218 187303002620 HlyD family secretion protein; Region: HlyD; pfam00529 187303002621 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303002622 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303002623 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 187303002624 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 187303002625 putative substrate translocation pore; other site 187303002626 Protein of unknown function (DUF992); Region: DUF992; pfam06186 187303002627 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 187303002628 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 187303002629 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 187303002630 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 187303002631 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 187303002632 tetrameric interface [polypeptide binding]; other site 187303002633 NAD binding site [chemical binding]; other site 187303002634 catalytic residues [active] 187303002635 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 187303002636 cofactor binding site; other site 187303002637 metal binding site [ion binding]; metal-binding site 187303002638 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 187303002639 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 187303002640 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 187303002641 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 187303002642 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 187303002643 dimer interface [polypeptide binding]; other site 187303002644 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 187303002645 active site 187303002646 Fe binding site [ion binding]; other site 187303002647 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 187303002648 maleylacetoacetate isomerase; Region: maiA; TIGR01262 187303002649 C-terminal domain interface [polypeptide binding]; other site 187303002650 GSH binding site (G-site) [chemical binding]; other site 187303002651 putative dimer interface [polypeptide binding]; other site 187303002652 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 187303002653 N-terminal domain interface [polypeptide binding]; other site 187303002654 dimer interface [polypeptide binding]; other site 187303002655 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 187303002656 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 187303002657 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 187303002658 E3 interaction surface; other site 187303002659 lipoyl attachment site [posttranslational modification]; other site 187303002660 e3 binding domain; Region: E3_binding; pfam02817 187303002661 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 187303002662 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 187303002663 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 187303002664 alpha subunit interface [polypeptide binding]; other site 187303002665 TPP binding site [chemical binding]; other site 187303002666 heterodimer interface [polypeptide binding]; other site 187303002667 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187303002668 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 187303002669 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 187303002670 tetramer interface [polypeptide binding]; other site 187303002671 TPP-binding site [chemical binding]; other site 187303002672 heterodimer interface [polypeptide binding]; other site 187303002673 phosphorylation loop region [posttranslational modification] 187303002674 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 187303002675 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 187303002676 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 187303002677 NAD(P) binding site [chemical binding]; other site 187303002678 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 187303002679 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 187303002680 dimer interface [polypeptide binding]; other site 187303002681 active site 187303002682 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 187303002683 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 187303002684 substrate binding site [chemical binding]; other site 187303002685 oxyanion hole (OAH) forming residues; other site 187303002686 trimer interface [polypeptide binding]; other site 187303002687 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 187303002688 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 187303002689 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 187303002690 substrate binding pocket [chemical binding]; other site 187303002691 FAD binding site [chemical binding]; other site 187303002692 catalytic base [active] 187303002693 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 187303002694 active site 187303002695 catalytic residues [active] 187303002696 metal binding site [ion binding]; metal-binding site 187303002697 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 187303002698 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187303002699 ATP-grasp domain; Region: ATP-grasp_4; cl17255 187303002700 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 187303002701 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 187303002702 carboxyltransferase (CT) interaction site; other site 187303002703 biotinylation site [posttranslational modification]; other site 187303002704 enoyl-CoA hydratase; Provisional; Region: PRK05995 187303002705 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 187303002706 substrate binding site [chemical binding]; other site 187303002707 oxyanion hole (OAH) forming residues; other site 187303002708 trimer interface [polypeptide binding]; other site 187303002709 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 187303002710 isovaleryl-CoA dehydrogenase; Region: PLN02519 187303002711 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 187303002712 substrate binding site [chemical binding]; other site 187303002713 FAD binding site [chemical binding]; other site 187303002714 catalytic base [active] 187303002715 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 187303002716 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 187303002717 active site 187303002718 substrate-binding site [chemical binding]; other site 187303002719 metal-binding site [ion binding] 187303002720 ATP binding site [chemical binding]; other site 187303002721 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 187303002722 PRC-barrel domain; Region: PRC; pfam05239 187303002723 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: GT1_like_1; cd04950 187303002724 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303002725 putative homodimer interface [polypeptide binding]; other site 187303002726 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 187303002727 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 187303002728 UDP-galactopyranose mutase; Region: GLF; pfam03275 187303002729 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 187303002730 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 187303002731 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 187303002732 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 187303002733 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 187303002734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303002735 Walker A/P-loop; other site 187303002736 ATP binding site [chemical binding]; other site 187303002737 Q-loop/lid; other site 187303002738 ABC transporter signature motif; other site 187303002739 Walker B; other site 187303002740 D-loop; other site 187303002741 H-loop/switch region; other site 187303002742 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 187303002743 HdeA/HdeB family; Region: HdeA; cl05752 187303002744 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 187303002745 CopC domain; Region: CopC; pfam04234 187303002746 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 187303002747 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 187303002748 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 187303002749 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 187303002750 TIGR02300 family protein; Region: FYDLN_acid 187303002751 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 187303002752 IHF dimer interface [polypeptide binding]; other site 187303002753 IHF - DNA interface [nucleotide binding]; other site 187303002754 exopolyphosphatase; Region: exo_poly_only; TIGR03706 187303002755 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 187303002756 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 187303002757 putative active site [active] 187303002758 Ap4A binding site [chemical binding]; other site 187303002759 nudix motif; other site 187303002760 putative metal binding site [ion binding]; other site 187303002761 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 187303002762 putative RNA binding site [nucleotide binding]; other site 187303002763 16S rRNA methyltransferase B; Provisional; Region: PRK10901 187303002764 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 187303002765 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 187303002766 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 187303002767 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 187303002768 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 187303002769 DNA binding residues [nucleotide binding] 187303002770 dimerization interface [polypeptide binding]; other site 187303002771 Dienelactone hydrolase family; Region: DLH; pfam01738 187303002772 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 187303002773 potassium uptake protein; Region: kup; TIGR00794 187303002774 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 187303002775 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 187303002776 substrate binding site [chemical binding]; other site 187303002777 active site 187303002778 catalytic residues [active] 187303002779 heterodimer interface [polypeptide binding]; other site 187303002780 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 187303002781 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 187303002782 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 187303002783 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 187303002784 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 187303002785 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 187303002786 potential catalytic triad [active] 187303002787 conserved cys residue [active] 187303002788 hypothetical protein; Provisional; Region: PRK02227 187303002789 Dihydroneopterin aldolase; Region: FolB; pfam02152 187303002790 active site 187303002791 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 187303002792 nucleotide binding site [chemical binding]; other site 187303002793 substrate binding site [chemical binding]; other site 187303002794 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 187303002795 Flavoprotein; Region: Flavoprotein; pfam02441 187303002796 dihydropteroate synthase-related protein; Region: TIGR00284 187303002797 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 187303002798 substrate binding pocket [chemical binding]; other site 187303002799 inhibitor binding site; inhibition site 187303002800 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 187303002801 Protein of unknown function (DUF447); Region: DUF447; pfam04289 187303002802 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 187303002803 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 187303002804 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 187303002805 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 187303002806 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 187303002807 NAD(P) binding pocket [chemical binding]; other site 187303002808 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 187303002809 Predicted transcriptional regulators [Transcription]; Region: COG1695 187303002810 Transcriptional regulator PadR-like family; Region: PadR; cl17335 187303002811 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 187303002812 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 187303002813 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 187303002814 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 187303002815 active site 187303002816 dimer interface [polypeptide binding]; other site 187303002817 motif 1; other site 187303002818 motif 2; other site 187303002819 motif 3; other site 187303002820 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 187303002821 anticodon binding site; other site 187303002822 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 187303002823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303002824 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 187303002825 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 187303002826 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 187303002827 trimer interface [polypeptide binding]; other site 187303002828 active site 187303002829 substrate binding site [chemical binding]; other site 187303002830 CoA binding site [chemical binding]; other site 187303002831 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 187303002832 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303002833 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 187303002834 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 187303002835 CAP-like domain; other site 187303002836 active site 187303002837 primary dimer interface [polypeptide binding]; other site 187303002838 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 187303002839 Recombination protein O N terminal; Region: RecO_N; pfam11967 187303002840 Recombination protein O C terminal; Region: RecO_C; pfam02565 187303002841 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 187303002842 GTPase Era; Reviewed; Region: era; PRK00089 187303002843 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 187303002844 G1 box; other site 187303002845 GTP/Mg2+ binding site [chemical binding]; other site 187303002846 Switch I region; other site 187303002847 G2 box; other site 187303002848 Switch II region; other site 187303002849 G3 box; other site 187303002850 G4 box; other site 187303002851 G5 box; other site 187303002852 KH domain; Region: KH_2; pfam07650 187303002853 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 187303002854 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 187303002855 dimerization interface [polypeptide binding]; other site 187303002856 active site 187303002857 metal binding site [ion binding]; metal-binding site 187303002858 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 187303002859 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 187303002860 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 187303002861 Catalytic site [active] 187303002862 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 187303002863 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 187303002864 active site 187303002865 hydrophilic channel; other site 187303002866 dimerization interface [polypeptide binding]; other site 187303002867 catalytic residues [active] 187303002868 active site lid [active] 187303002869 Helix-turn-helix domain; Region: HTH_18; pfam12833 187303002870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303002871 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 187303002872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 187303002873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187303002874 Coenzyme A binding pocket [chemical binding]; other site 187303002875 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 187303002876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 187303002877 Zn2+ binding site [ion binding]; other site 187303002878 Mg2+ binding site [ion binding]; other site 187303002879 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 187303002880 synthetase active site [active] 187303002881 NTP binding site [chemical binding]; other site 187303002882 metal binding site [ion binding]; metal-binding site 187303002883 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 187303002884 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 187303002885 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 187303002886 Uncharacterized conserved protein [Function unknown]; Region: COG1432 187303002887 LabA_like proteins; Region: LabA; cd10911 187303002888 putative metal binding site [ion binding]; other site 187303002889 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 187303002890 SmpB-tmRNA interface; other site 187303002891 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 187303002892 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 187303002893 dimer interface [polypeptide binding]; other site 187303002894 active site 187303002895 catalytic residue [active] 187303002896 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 187303002897 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303002898 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303002899 catalytic residue [active] 187303002900 Bacterial SH3 domain; Region: SH3_3; cl17532 187303002901 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 187303002902 MG2 domain; Region: A2M_N; pfam01835 187303002903 Alpha-2-macroglobulin family; Region: A2M; pfam00207 187303002904 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 187303002905 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 187303002906 Transglycosylase; Region: Transgly; pfam00912 187303002907 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 187303002908 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 187303002909 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 187303002910 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 187303002911 hinge; other site 187303002912 active site 187303002913 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 187303002914 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 187303002915 dimer interface [polypeptide binding]; other site 187303002916 active site 187303002917 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 187303002918 active site 187303002919 tetramer interface; other site 187303002920 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 187303002921 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 187303002922 NAD binding site [chemical binding]; other site 187303002923 homodimer interface [polypeptide binding]; other site 187303002924 active site 187303002925 substrate binding site [chemical binding]; other site 187303002926 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 187303002927 dimerization interface [polypeptide binding]; other site 187303002928 putative DNA binding site [nucleotide binding]; other site 187303002929 putative Zn2+ binding site [ion binding]; other site 187303002930 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 187303002931 putative hydrophobic ligand binding site [chemical binding]; other site 187303002932 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 187303002933 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 187303002934 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 187303002935 putative hydrolase; Provisional; Region: PRK11460 187303002936 Methyltransferase domain; Region: Methyltransf_11; pfam08241 187303002937 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 187303002938 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 187303002939 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 187303002940 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 187303002941 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 187303002942 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 187303002943 putative active site [active] 187303002944 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303002945 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 187303002946 dimer interface [polypeptide binding]; other site 187303002947 phosphorylation site [posttranslational modification] 187303002948 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 187303002949 ATP binding site [chemical binding]; other site 187303002950 Mg2+ binding site [ion binding]; other site 187303002951 G-X-G motif; other site 187303002952 Phasin protein; Region: Phasin_2; cl11491 187303002953 Phasin protein; Region: Phasin_2; cl11491 187303002954 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 187303002955 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 187303002956 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 187303002957 shikimate binding site; other site 187303002958 NAD(P) binding site [chemical binding]; other site 187303002959 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 187303002960 pantoate--beta-alanine ligase; Region: panC; TIGR00018 187303002961 Pantoate-beta-alanine ligase; Region: PanC; cd00560 187303002962 active site 187303002963 ATP-binding site [chemical binding]; other site 187303002964 pantoate-binding site; other site 187303002965 HXXH motif; other site 187303002966 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 187303002967 putative active site pocket [active] 187303002968 dimerization interface [polypeptide binding]; other site 187303002969 putative catalytic residue [active] 187303002970 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 187303002971 Cytochrome P450; Region: p450; cl12078 187303002972 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 187303002973 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 187303002974 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 187303002975 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303002976 ligand binding site [chemical binding]; other site 187303002977 flexible hinge region; other site 187303002978 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 187303002979 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 187303002980 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 187303002981 active site 187303002982 catalytic tetrad [active] 187303002983 transcriptional regulator; Provisional; Region: PRK10632 187303002984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303002985 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 187303002986 dimerization interface [polypeptide binding]; other site 187303002987 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 187303002988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303002989 non-specific DNA binding site [nucleotide binding]; other site 187303002990 salt bridge; other site 187303002991 sequence-specific DNA binding site [nucleotide binding]; other site 187303002992 Copper resistance protein D; Region: CopD; cl00563 187303002993 CopC domain; Region: CopC; pfam04234 187303002994 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 187303002995 classical (c) SDRs; Region: SDR_c; cd05233 187303002996 NAD(P) binding site [chemical binding]; other site 187303002997 active site 187303002998 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 187303002999 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 187303003000 E-class dimer interface [polypeptide binding]; other site 187303003001 P-class dimer interface [polypeptide binding]; other site 187303003002 active site 187303003003 Cu2+ binding site [ion binding]; other site 187303003004 Zn2+ binding site [ion binding]; other site 187303003005 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 187303003006 Phosphotransferase enzyme family; Region: APH; pfam01636 187303003007 active site 187303003008 substrate binding site [chemical binding]; other site 187303003009 ATP binding site [chemical binding]; other site 187303003010 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 187303003011 Hemerythrin-like domain; Region: Hr-like; cd12108 187303003012 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 187303003013 oligomer interface [polypeptide binding]; other site 187303003014 agmatinase; Region: agmatinase; TIGR01230 187303003015 putative active site [active] 187303003016 Mn binding site [ion binding]; other site 187303003017 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; pfam01862 187303003018 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 187303003019 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 187303003020 homotrimer interaction site [polypeptide binding]; other site 187303003021 putative active site [active] 187303003022 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 187303003023 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 187303003024 active site 187303003025 catalytic site [active] 187303003026 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 187303003027 Sel1-like repeats; Region: SEL1; smart00671 187303003028 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 187303003029 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 187303003030 Sulfate transporter family; Region: Sulfate_transp; pfam00916 187303003031 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 187303003032 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 187303003033 active site clefts [active] 187303003034 zinc binding site [ion binding]; other site 187303003035 dimer interface [polypeptide binding]; other site 187303003036 putative carbohydrate kinase; Provisional; Region: PRK10565 187303003037 Uncharacterized conserved protein [Function unknown]; Region: COG0062 187303003038 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 187303003039 putative substrate binding site [chemical binding]; other site 187303003040 putative ATP binding site [chemical binding]; other site 187303003041 Predicted metalloprotease [General function prediction only]; Region: COG2321 187303003042 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 187303003043 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 187303003044 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 187303003045 putative active site [active] 187303003046 metal binding site [ion binding]; metal-binding site 187303003047 homodimer binding site [polypeptide binding]; other site 187303003048 aminodeoxychorismate synthase; Provisional; Region: PRK07508 187303003049 chorismate binding enzyme; Region: Chorismate_bind; cl10555 187303003050 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 187303003051 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 187303003052 substrate-cofactor binding pocket; other site 187303003053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303003054 catalytic residue [active] 187303003055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303003056 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303003057 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303003058 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 187303003059 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 187303003060 Uncharacterized conserved protein [Function unknown]; Region: COG0432 187303003061 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 187303003062 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303003063 ligand binding site [chemical binding]; other site 187303003064 flexible hinge region; other site 187303003065 pyruvate phosphate dikinase; Provisional; Region: PRK09279 187303003066 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 187303003067 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 187303003068 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 187303003069 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 187303003070 active site flap/lid [active] 187303003071 nucleophilic elbow; other site 187303003072 catalytic triad [active] 187303003073 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 187303003074 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 187303003075 dimer interface [polypeptide binding]; other site 187303003076 anticodon binding site; other site 187303003077 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 187303003078 homodimer interface [polypeptide binding]; other site 187303003079 motif 1; other site 187303003080 active site 187303003081 motif 2; other site 187303003082 GAD domain; Region: GAD; pfam02938 187303003083 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187303003084 active site 187303003085 motif 3; other site 187303003086 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 187303003087 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 187303003088 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 187303003089 5S rRNA interface [nucleotide binding]; other site 187303003090 CTC domain interface [polypeptide binding]; other site 187303003091 L16 interface [polypeptide binding]; other site 187303003092 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 187303003093 putative active site [active] 187303003094 catalytic residue [active] 187303003095 Stringent starvation protein B; Region: SspB; pfam04386 187303003096 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 187303003097 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 187303003098 Part of AAA domain; Region: AAA_19; pfam13245 187303003099 Family description; Region: UvrD_C_2; pfam13538 187303003100 YcfA-like protein; Region: YcfA; pfam07927 187303003101 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 187303003102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 187303003103 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303003104 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303003105 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 187303003106 S-adenosylmethionine binding site [chemical binding]; other site 187303003107 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 187303003108 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303003109 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 187303003110 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303003111 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 187303003112 pseudoazurin; Region: pseudoazurin; TIGR02375 187303003113 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 187303003114 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 187303003115 putative substrate translocation pore; other site 187303003116 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303003117 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 187303003118 S-adenosylmethionine binding site [chemical binding]; other site 187303003119 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 187303003120 dimer interface [polypeptide binding]; other site 187303003121 FMN binding site [chemical binding]; other site 187303003122 NADPH bind site [chemical binding]; other site 187303003123 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 187303003124 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 187303003125 MOFRL family; Region: MOFRL; pfam05161 187303003126 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 187303003127 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 187303003128 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 187303003129 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 187303003130 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 187303003131 CoA binding domain; Region: CoA_binding; smart00881 187303003132 CoA-ligase; Region: Ligase_CoA; pfam00549 187303003133 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 187303003134 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 187303003135 CoA-ligase; Region: Ligase_CoA; pfam00549 187303003136 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 187303003137 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 187303003138 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 187303003139 NAD(P) binding pocket [chemical binding]; other site 187303003140 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 187303003141 glycerate dehydrogenase; Provisional; Region: PRK06487 187303003142 putative ligand binding site [chemical binding]; other site 187303003143 putative NAD binding site [chemical binding]; other site 187303003144 catalytic site [active] 187303003145 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 187303003146 homodimer interface [polypeptide binding]; other site 187303003147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303003148 catalytic residue [active] 187303003149 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 187303003150 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 187303003151 Potassium binding sites [ion binding]; other site 187303003152 Cesium cation binding sites [ion binding]; other site 187303003153 methionine sulfoxide reductase B; Provisional; Region: PRK00222 187303003154 SelR domain; Region: SelR; pfam01641 187303003155 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 187303003156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 187303003157 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 187303003158 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 187303003159 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 187303003160 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 187303003161 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 187303003162 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303003163 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 187303003164 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 187303003165 D-pathway; other site 187303003166 Putative ubiquinol binding site [chemical binding]; other site 187303003167 Low-spin heme (heme b) binding site [chemical binding]; other site 187303003168 Putative water exit pathway; other site 187303003169 Binuclear center (heme o3/CuB) [ion binding]; other site 187303003170 K-pathway; other site 187303003171 Putative proton exit pathway; other site 187303003172 proposed homoserine kinase; Region: hyp_Hser_kinase; TIGR02535 187303003173 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 187303003174 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 187303003175 non-specific DNA binding site [nucleotide binding]; other site 187303003176 salt bridge; other site 187303003177 sequence-specific DNA binding site [nucleotide binding]; other site 187303003178 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 187303003179 phosphoglycolate phosphatase; Provisional; Region: PRK13222 187303003180 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 187303003181 motif II; other site 187303003182 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 187303003183 tetramer (dimer of dimers) interface [polypeptide binding]; other site 187303003184 active site 187303003185 dimer interface [polypeptide binding]; other site 187303003186 glutathione reductase; Validated; Region: PRK06116 187303003187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303003188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303003189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 187303003190 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 187303003191 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 187303003192 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 187303003193 ligand binding site; other site 187303003194 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 187303003195 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 187303003196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303003197 active site 187303003198 HIGH motif; other site 187303003199 nucleotide binding site [chemical binding]; other site 187303003200 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 187303003201 active site 187303003202 KMSKS motif; other site 187303003203 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 187303003204 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 187303003205 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 187303003206 NnrU protein; Region: NnrU; pfam07298 187303003207 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 187303003208 DNA binding site [nucleotide binding] 187303003209 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 187303003210 TPR motif; other site 187303003211 binding surface 187303003212 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303003213 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 187303003214 dimer interface [polypeptide binding]; other site 187303003215 substrate binding site [chemical binding]; other site 187303003216 metal binding site [ion binding]; metal-binding site 187303003217 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 187303003218 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 187303003219 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 187303003220 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 187303003221 catalytic site [active] 187303003222 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 187303003223 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 187303003224 substrate binding site; other site 187303003225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303003226 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 187303003227 NAD(P) binding site [chemical binding]; other site 187303003228 active site 187303003229 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 187303003230 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303003231 Methyltransferase domain; Region: Methyltransf_12; pfam08242 187303003232 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 187303003233 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 187303003234 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303003235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303003236 NAD(P) binding site [chemical binding]; other site 187303003237 active site 187303003238 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 187303003239 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 187303003240 active site 187303003241 Porin subfamily; Region: Porin_2; pfam02530 187303003242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 187303003243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 187303003244 MORN repeat; Region: MORN; cl14787 187303003245 Transglycosylase SLT domain; Region: SLT_2; pfam13406 187303003246 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303003247 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303003248 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 187303003249 Coenzyme A transferase; Region: CoA_trans; cl17247 187303003250 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 187303003251 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 187303003252 dimer interface [polypeptide binding]; other site 187303003253 active site 187303003254 galactokinase; Provisional; Region: PRK05101 187303003255 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 187303003256 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 187303003257 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 187303003258 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 187303003259 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 187303003260 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 187303003261 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 187303003262 Divalent cation transporter; Region: MgtE; cl00786 187303003263 S-adenosylmethionine synthetase; Validated; Region: PRK05250 187303003264 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 187303003265 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 187303003266 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 187303003267 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 187303003268 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 187303003269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303003270 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 187303003271 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 187303003272 motif II; other site 187303003273 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187303003274 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 187303003275 putative heme binding pocket [chemical binding]; other site 187303003276 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 187303003277 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 187303003278 Uncharacterized conserved protein [Function unknown]; Region: COG4544 187303003279 DNA Polymerase Y-family; Region: PolY_like; cd03468 187303003280 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 187303003281 DNA binding site [nucleotide binding] 187303003282 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 187303003283 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 187303003284 putative active site [active] 187303003285 putative PHP Thumb interface [polypeptide binding]; other site 187303003286 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 187303003287 generic binding surface II; other site 187303003288 generic binding surface I; other site 187303003289 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 187303003290 IHF dimer interface [polypeptide binding]; other site 187303003291 IHF - DNA interface [nucleotide binding]; other site 187303003292 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 187303003293 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 187303003294 tandem repeat interface [polypeptide binding]; other site 187303003295 oligomer interface [polypeptide binding]; other site 187303003296 active site residues [active] 187303003297 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 187303003298 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 187303003299 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303003300 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 187303003301 protein binding site [polypeptide binding]; other site 187303003302 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 187303003303 protein binding site [polypeptide binding]; other site 187303003304 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 187303003305 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 187303003306 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 187303003307 alphaNTD homodimer interface [polypeptide binding]; other site 187303003308 alphaNTD - beta interaction site [polypeptide binding]; other site 187303003309 alphaNTD - beta' interaction site [polypeptide binding]; other site 187303003310 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 187303003311 30S ribosomal protein S11; Validated; Region: PRK05309 187303003312 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 187303003313 30S ribosomal protein S13; Region: bact_S13; TIGR03631 187303003314 adenylate kinase; Reviewed; Region: adk; PRK00279 187303003315 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 187303003316 AMP-binding site [chemical binding]; other site 187303003317 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 187303003318 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 187303003319 SecY translocase; Region: SecY; pfam00344 187303003320 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 187303003321 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_like; cl00203 187303003322 23S rRNA binding site - archaea [nucleotide binding]; other site 187303003323 23S rRNA binding site - prokaryotes [nucleotide binding]; other site 187303003324 5S rRNA binding site - archaea; other site 187303003325 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 187303003326 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 187303003327 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 187303003328 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 187303003329 5S rRNA interface [nucleotide binding]; other site 187303003330 23S rRNA interface [nucleotide binding]; other site 187303003331 L5 interface [polypeptide binding]; other site 187303003332 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 187303003333 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 187303003334 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 187303003335 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 187303003336 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 187303003337 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 187303003338 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 187303003339 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 187303003340 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 187303003341 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 187303003342 RNA binding site [nucleotide binding]; other site 187303003343 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 187303003344 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 187303003345 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 187303003346 23S rRNA interface [nucleotide binding]; other site 187303003347 putative translocon interaction site; other site 187303003348 signal recognition particle (SRP54) interaction site; other site 187303003349 L23 interface [polypeptide binding]; other site 187303003350 trigger factor interaction site; other site 187303003351 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 187303003352 23S rRNA interface [nucleotide binding]; other site 187303003353 5S rRNA interface [nucleotide binding]; other site 187303003354 putative antibiotic binding site [chemical binding]; other site 187303003355 L25 interface [polypeptide binding]; other site 187303003356 L27 interface [polypeptide binding]; other site 187303003357 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 187303003358 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 187303003359 G-X-X-G motif; other site 187303003360 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 187303003361 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 187303003362 putative translocon binding site; other site 187303003363 protein-rRNA interface [nucleotide binding]; other site 187303003364 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 187303003365 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 187303003366 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 187303003367 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 187303003368 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 187303003369 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 187303003370 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 187303003371 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 187303003372 elongation factor Tu; Reviewed; Region: PRK00049 187303003373 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 187303003374 G1 box; other site 187303003375 GEF interaction site [polypeptide binding]; other site 187303003376 GTP/Mg2+ binding site [chemical binding]; other site 187303003377 Switch I region; other site 187303003378 G2 box; other site 187303003379 G3 box; other site 187303003380 Switch II region; other site 187303003381 G4 box; other site 187303003382 G5 box; other site 187303003383 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 187303003384 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 187303003385 Antibiotic Binding Site [chemical binding]; other site 187303003386 elongation factor G; Reviewed; Region: PRK00007 187303003387 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 187303003388 G1 box; other site 187303003389 putative GEF interaction site [polypeptide binding]; other site 187303003390 GTP/Mg2+ binding site [chemical binding]; other site 187303003391 Switch I region; other site 187303003392 G2 box; other site 187303003393 G3 box; other site 187303003394 Switch II region; other site 187303003395 G4 box; other site 187303003396 G5 box; other site 187303003397 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 187303003398 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 187303003399 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 187303003400 30S ribosomal protein S7; Validated; Region: PRK05302 187303003401 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 187303003402 S17 interaction site [polypeptide binding]; other site 187303003403 S8 interaction site; other site 187303003404 16S rRNA interaction site [nucleotide binding]; other site 187303003405 streptomycin interaction site [chemical binding]; other site 187303003406 23S rRNA interaction site [nucleotide binding]; other site 187303003407 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 187303003408 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 187303003409 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 187303003410 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 187303003411 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 187303003412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 187303003413 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303003414 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 187303003415 active site 187303003416 phosphorylation site [posttranslational modification] 187303003417 intermolecular recognition site; other site 187303003418 dimerization interface [polypeptide binding]; other site 187303003419 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 187303003420 DNA binding site [nucleotide binding] 187303003421 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 187303003422 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 187303003423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303003424 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 187303003425 dimer interface [polypeptide binding]; other site 187303003426 phosphorylation site [posttranslational modification] 187303003427 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 187303003428 ATP binding site [chemical binding]; other site 187303003429 Mg2+ binding site [ion binding]; other site 187303003430 G-X-G motif; other site 187303003431 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 187303003432 Hpr binding site; other site 187303003433 active site 187303003434 homohexamer subunit interaction site [polypeptide binding]; other site 187303003435 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 187303003436 active pocket/dimerization site; other site 187303003437 active site 187303003438 phosphorylation site [posttranslational modification] 187303003439 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 187303003440 regulatory protein interface [polypeptide binding]; other site 187303003441 active site 187303003442 regulatory phosphorylation site [posttranslational modification]; other site 187303003443 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 187303003444 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 187303003445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303003446 Walker A/P-loop; other site 187303003447 ATP binding site [chemical binding]; other site 187303003448 Q-loop/lid; other site 187303003449 ABC transporter signature motif; other site 187303003450 Walker B; other site 187303003451 D-loop; other site 187303003452 H-loop/switch region; other site 187303003453 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 187303003454 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 187303003455 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 187303003456 oligomerization interface [polypeptide binding]; other site 187303003457 active site 187303003458 metal binding site [ion binding]; metal-binding site 187303003459 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 187303003460 ferrochelatase; Reviewed; Region: hemH; PRK00035 187303003461 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 187303003462 C-terminal domain interface [polypeptide binding]; other site 187303003463 active site 187303003464 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 187303003465 active site 187303003466 N-terminal domain interface [polypeptide binding]; other site 187303003467 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 187303003468 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303003469 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303003470 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303003471 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 187303003472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303003473 Walker A/P-loop; other site 187303003474 ATP binding site [chemical binding]; other site 187303003475 Q-loop/lid; other site 187303003476 ABC transporter signature motif; other site 187303003477 Walker B; other site 187303003478 D-loop; other site 187303003479 H-loop/switch region; other site 187303003480 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 187303003481 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 187303003482 MarR family; Region: MarR_2; pfam12802 187303003483 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 187303003484 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 187303003485 substrate binding site [chemical binding]; other site 187303003486 oxyanion hole (OAH) forming residues; other site 187303003487 trimer interface [polypeptide binding]; other site 187303003488 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 187303003489 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 187303003490 HSP70 interaction site [polypeptide binding]; other site 187303003491 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 187303003492 substrate binding site [polypeptide binding]; other site 187303003493 dimer interface [polypeptide binding]; other site 187303003494 Putative zinc-finger; Region: zf-HC2; pfam13490 187303003495 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 187303003496 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 187303003497 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 187303003498 NAD binding site [chemical binding]; other site 187303003499 homotetramer interface [polypeptide binding]; other site 187303003500 homodimer interface [polypeptide binding]; other site 187303003501 substrate binding site [chemical binding]; other site 187303003502 active site 187303003503 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 187303003504 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 187303003505 active site 187303003506 Zn binding site [ion binding]; other site 187303003507 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 187303003508 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 187303003509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 187303003510 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 187303003511 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 187303003512 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 187303003513 lipoprotein signal peptidase; Provisional; Region: PRK14796 187303003514 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 187303003515 oligomerisation interface [polypeptide binding]; other site 187303003516 mobile loop; other site 187303003517 roof hairpin; other site 187303003518 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 187303003519 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 187303003520 ring oligomerisation interface [polypeptide binding]; other site 187303003521 ATP/Mg binding site [chemical binding]; other site 187303003522 stacking interactions; other site 187303003523 hinge regions; other site 187303003524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187303003525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303003526 LysR substrate binding domain; Region: LysR_substrate; pfam03466 187303003527 dimerization interface [polypeptide binding]; other site 187303003528 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 187303003529 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 187303003530 motif II; other site 187303003531 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 187303003532 classical (c) SDRs; Region: SDR_c; cd05233 187303003533 NAD(P) binding site [chemical binding]; other site 187303003534 active site 187303003535 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 187303003536 dimerization interface [polypeptide binding]; other site 187303003537 metal binding site [ion binding]; metal-binding site 187303003538 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 187303003539 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 187303003540 ligand binding site [chemical binding]; other site 187303003541 homodimer interface [polypeptide binding]; other site 187303003542 NAD(P) binding site [chemical binding]; other site 187303003543 trimer interface B [polypeptide binding]; other site 187303003544 trimer interface A [polypeptide binding]; other site 187303003545 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 187303003546 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 187303003547 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 187303003548 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303003549 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 187303003550 N-terminal plug; other site 187303003551 ligand-binding site [chemical binding]; other site 187303003552 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187303003553 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 187303003554 TolR protein; Region: tolR; TIGR02801 187303003555 Gram-negative bacterial tonB protein; Region: TonB; cl10048 187303003556 BNR repeat-like domain; Region: BNR_2; pfam13088 187303003557 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 187303003558 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303003559 catalytic residues [active] 187303003560 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 187303003561 dihydroorotase; Validated; Region: PRK09060 187303003562 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 187303003563 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 187303003564 active site 187303003565 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 187303003566 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 187303003567 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 187303003568 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 187303003569 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 187303003570 trimer interface I [polypeptide binding]; other site 187303003571 putative substrate binding pocket [chemical binding]; other site 187303003572 trimer interface II [polypeptide binding]; other site 187303003573 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 187303003574 ATP-grasp domain; Region: ATP-grasp_4; cl17255 187303003575 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 187303003576 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 187303003577 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 187303003578 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 187303003579 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 187303003580 active site 187303003581 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187303003582 active site residue [active] 187303003583 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 187303003584 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 187303003585 substrate binding pocket [chemical binding]; other site 187303003586 membrane-bound complex binding site; other site 187303003587 hinge residues; other site 187303003588 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 187303003589 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 187303003590 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 187303003591 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 187303003592 Trp docking motif [polypeptide binding]; other site 187303003593 dimer interface [polypeptide binding]; other site 187303003594 active site 187303003595 small subunit binding site [polypeptide binding]; other site 187303003596 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 187303003597 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 187303003598 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 187303003599 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303003600 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 187303003601 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 187303003602 active site 187303003603 substrate binding site [chemical binding]; other site 187303003604 Mg2+ binding site [ion binding]; other site 187303003605 Cytochrome c; Region: Cytochrom_C; cl11414 187303003606 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 187303003607 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 187303003608 metal coordination site [ion binding]; other site 187303003609 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 187303003610 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 187303003611 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 187303003612 metal ion-dependent adhesion site (MIDAS); other site 187303003613 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 187303003614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303003615 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303003616 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303003617 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 187303003618 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 187303003619 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 187303003620 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 187303003621 HSP70 interaction site [polypeptide binding]; other site 187303003622 BolA-like protein; Region: BolA; pfam01722 187303003623 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; cd01494 187303003624 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303003625 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 187303003626 catalytic residue [active] 187303003627 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 187303003628 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 187303003629 ligand binding site [chemical binding]; other site 187303003630 NAD binding site [chemical binding]; other site 187303003631 dimerization interface [polypeptide binding]; other site 187303003632 catalytic site [active] 187303003633 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 187303003634 putative L-serine binding site [chemical binding]; other site 187303003635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303003636 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303003637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 187303003638 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187303003639 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 187303003640 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 187303003641 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 187303003642 N-terminal plug; other site 187303003643 ligand-binding site [chemical binding]; other site 187303003644 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 187303003645 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 187303003646 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 187303003647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303003648 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 187303003649 DNA binding residues [nucleotide binding] 187303003650 methanobactin precursor, Mb-OB3b family; Region: methanobac_OB3b; TIGR04071 187303003651 methanobactin biosynthesis cassette protein MbnB; Region: methbact_MbnB; TIGR04159 187303003652 Protein of unknown function (DUF692); Region: DUF692; cl01263 187303003653 AZL_007950 family protein; Region: AZL_007950_fam; cl14861 187303003654 FAD binding domain; Region: FAD_binding_3; pfam01494 187303003655 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 187303003656 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 187303003657 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 187303003658 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 187303003659 FeS/SAM binding site; other site 187303003660 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 187303003661 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 187303003662 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 187303003663 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 187303003664 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 187303003665 P loop; other site 187303003666 Nucleotide binding site [chemical binding]; other site 187303003667 DTAP/Switch II; other site 187303003668 Switch I; other site 187303003669 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 187303003670 DTAP/Switch II; other site 187303003671 Switch I; other site 187303003672 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 187303003673 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 187303003674 ArsC family; Region: ArsC; pfam03960 187303003675 catalytic residues [active] 187303003676 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 187303003677 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 187303003678 molybdopterin cofactor binding site; other site 187303003679 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 187303003680 molybdopterin cofactor binding site; other site 187303003681 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 187303003682 [2Fe-2S] cluster binding site [ion binding]; other site 187303003683 subunit interaction site [polypeptide binding]; other site 187303003684 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 187303003685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303003686 putative metal binding site [ion binding]; other site 187303003687 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 187303003688 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 187303003689 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 187303003690 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 187303003691 trimer interface [polypeptide binding]; other site 187303003692 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 187303003693 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 187303003694 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 187303003695 putative ligand binding site [chemical binding]; other site 187303003696 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 187303003697 dimerization interface [polypeptide binding]; other site 187303003698 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 187303003699 dimer interface [polypeptide binding]; other site 187303003700 phosphorylation site [posttranslational modification] 187303003701 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 187303003702 ATP binding site [chemical binding]; other site 187303003703 Mg2+ binding site [ion binding]; other site 187303003704 G-X-G motif; other site 187303003705 Response regulator receiver domain; Region: Response_reg; pfam00072 187303003706 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 187303003707 active site 187303003708 phosphorylation site [posttranslational modification] 187303003709 intermolecular recognition site; other site 187303003710 dimerization interface [polypeptide binding]; other site 187303003711 Response regulator receiver domain; Region: Response_reg; pfam00072 187303003712 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 187303003713 active site 187303003714 phosphorylation site [posttranslational modification] 187303003715 intermolecular recognition site; other site 187303003716 dimerization interface [polypeptide binding]; other site 187303003717 Response regulator receiver domain; Region: Response_reg; pfam00072 187303003718 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 187303003719 active site 187303003720 phosphorylation site [posttranslational modification] 187303003721 intermolecular recognition site; other site 187303003722 dimerization interface [polypeptide binding]; other site 187303003723 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 187303003724 dimer interface [polypeptide binding]; other site 187303003725 phosphorylation site [posttranslational modification] 187303003726 Response regulator receiver domain; Region: Response_reg; pfam00072 187303003727 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 187303003728 active site 187303003729 phosphorylation site [posttranslational modification] 187303003730 intermolecular recognition site; other site 187303003731 dimerization interface [polypeptide binding]; other site 187303003732 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 187303003733 cyclase homology domain; Region: CHD; cd07302 187303003734 nucleotidyl binding site; other site 187303003735 metal binding site [ion binding]; metal-binding site 187303003736 dimer interface [polypeptide binding]; other site 187303003737 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 187303003738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 187303003739 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 187303003740 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 187303003741 active site 187303003742 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 187303003743 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 187303003744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303003745 Enoylreductase; Region: PKS_ER; smart00829 187303003746 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 187303003747 NAD(P) binding site [chemical binding]; other site 187303003748 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 187303003749 KR domain; Region: KR; pfam08659 187303003750 putative NADP binding site [chemical binding]; other site 187303003751 active site 187303003752 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 187303003753 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 187303003754 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 187303003755 active site 187303003756 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 187303003757 putative active site [active] 187303003758 YdjC motif; other site 187303003759 Mg binding site [ion binding]; other site 187303003760 putative homodimer interface [polypeptide binding]; other site 187303003761 short chain dehydrogenase; Validated; Region: PRK06182 187303003762 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 187303003763 NADP binding site [chemical binding]; other site 187303003764 active site 187303003765 steroid binding site; other site 187303003766 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 187303003767 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 187303003768 homodimer interface [polypeptide binding]; other site 187303003769 active site 187303003770 TDP-binding site; other site 187303003771 acceptor substrate-binding pocket; other site 187303003772 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303003773 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303003774 DevC protein; Region: devC; TIGR01185 187303003775 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 187303003776 FtsX-like permease family; Region: FtsX; pfam02687 187303003777 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 187303003778 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 187303003779 Walker A/P-loop; other site 187303003780 ATP binding site [chemical binding]; other site 187303003781 Q-loop/lid; other site 187303003782 ABC transporter signature motif; other site 187303003783 Walker B; other site 187303003784 D-loop; other site 187303003785 H-loop/switch region; other site 187303003786 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 187303003787 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 187303003788 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 187303003789 active site 187303003790 catalytic tetrad [active] 187303003791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303003792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303003793 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 187303003794 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 187303003795 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 187303003796 DNA binding site [nucleotide binding] 187303003797 active site 187303003798 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 187303003799 CsbD-like; Region: CsbD; cl17424 187303003800 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 187303003801 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 187303003802 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 187303003803 putative DNA binding site [nucleotide binding]; other site 187303003804 putative homodimer interface [polypeptide binding]; other site 187303003805 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 187303003806 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 187303003807 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 187303003808 active site 187303003809 DNA binding site [nucleotide binding] 187303003810 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 187303003811 DNA binding site [nucleotide binding] 187303003812 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 187303003813 nucleotide binding site [chemical binding]; other site 187303003814 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 187303003815 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 187303003816 DNA binding site [nucleotide binding] 187303003817 heterodimer interface [polypeptide binding]; other site 187303003818 CsbD-like; Region: CsbD; cl17424 187303003819 hypothetical protein; Provisional; Region: PRK01842 187303003820 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 187303003821 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 187303003822 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 187303003823 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 187303003824 catalytic loop [active] 187303003825 iron binding site [ion binding]; other site 187303003826 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 187303003827 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 187303003828 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 187303003829 [4Fe-4S] binding site [ion binding]; other site 187303003830 molybdopterin cofactor binding site; other site 187303003831 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 187303003832 molybdopterin cofactor binding site; other site 187303003833 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 187303003834 putative dimer interface [polypeptide binding]; other site 187303003835 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 187303003836 SLBB domain; Region: SLBB; pfam10531 187303003837 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 187303003838 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 187303003839 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 187303003840 putative dimer interface [polypeptide binding]; other site 187303003841 [2Fe-2S] cluster binding site [ion binding]; other site 187303003842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187303003843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303003844 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 187303003845 dimerization interface [polypeptide binding]; other site 187303003846 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 187303003847 Histidine kinase; Region: HisKA_3; pfam07730 187303003848 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 187303003849 ATP binding site [chemical binding]; other site 187303003850 Mg2+ binding site [ion binding]; other site 187303003851 G-X-G motif; other site 187303003852 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303003853 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 187303003854 active site 187303003855 phosphorylation site [posttranslational modification] 187303003856 intermolecular recognition site; other site 187303003857 dimerization interface [polypeptide binding]; other site 187303003858 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 187303003859 DNA binding residues [nucleotide binding] 187303003860 dimerization interface [polypeptide binding]; other site 187303003861 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 187303003862 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 187303003863 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 187303003864 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 187303003865 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303003866 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 187303003867 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 187303003868 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 187303003869 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 187303003870 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 187303003871 GSH binding site [chemical binding]; other site 187303003872 catalytic residues [active] 187303003873 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 187303003874 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 187303003875 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 187303003876 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 187303003877 putative DNA binding site [nucleotide binding]; other site 187303003878 putative Zn2+ binding site [ion binding]; other site 187303003879 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 187303003880 putative hydrophobic ligand binding site [chemical binding]; other site 187303003881 Predicted integral membrane protein [Function unknown]; Region: COG5436 187303003882 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 187303003883 Transglycosylase; Region: Transgly; pfam00912 187303003884 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 187303003885 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 187303003886 hypothetical protein; Provisional; Region: PRK05170 187303003887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303003888 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303003889 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303003890 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 187303003891 GIY-YIG motif/motif A; other site 187303003892 putative active site [active] 187303003893 putative metal binding site [ion binding]; other site 187303003894 Uncharacterized conserved protein [Function unknown]; Region: COG5323 187303003895 Terminase-like family; Region: Terminase_6; pfam03237 187303003896 Phage-related protein [Function unknown]; Region: COG4695 187303003897 Phage portal protein; Region: Phage_portal; pfam04860 187303003898 Phage-related protein [Function unknown]; Region: COG4695; cl01923 187303003899 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 187303003900 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 187303003901 Phage capsid family; Region: Phage_capsid; pfam05065 187303003902 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 187303003903 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 187303003904 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 187303003905 oligomerization interface [polypeptide binding]; other site 187303003906 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 187303003907 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 187303003908 Phage major tail protein 2; Region: Phage_tail_2; cl11463 187303003909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303003910 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303003911 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303003912 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 187303003913 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 187303003914 Phage-related minor tail protein [Function unknown]; Region: COG5281 187303003915 TIGR02217 family protein; Region: chp_TIGR02217 187303003916 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 187303003917 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 187303003918 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 187303003919 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 187303003920 NlpC/P60 family; Region: NLPC_P60; cl17555 187303003921 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 187303003922 Putative phage tail protein; Region: Phage-tail_3; pfam13550 187303003923 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 187303003924 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 187303003925 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 187303003926 amidase catalytic site [active] 187303003927 Zn binding residues [ion binding]; other site 187303003928 substrate binding site [chemical binding]; other site 187303003929 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 187303003930 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303003931 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 187303003932 active site 187303003933 phosphorylation site [posttranslational modification] 187303003934 intermolecular recognition site; other site 187303003935 dimerization interface [polypeptide binding]; other site 187303003936 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 187303003937 DNA binding site [nucleotide binding] 187303003938 sensor protein PhoQ; Provisional; Region: PRK10815 187303003939 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 187303003940 ATP binding site [chemical binding]; other site 187303003941 Mg2+ binding site [ion binding]; other site 187303003942 G-X-G motif; other site 187303003943 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 187303003944 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 187303003945 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 187303003946 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 187303003947 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 187303003948 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 187303003949 CheB methylesterase; Region: CheB_methylest; pfam01339 187303003950 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 187303003951 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 187303003952 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 187303003953 Sec8 exocyst complex component specific domain; Region: Sec8_exocyst; pfam04048 187303003954 PAS domain; Region: PAS_10; pfam13596 187303003955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303003956 HWE histidine kinase; Region: HWE_HK; pfam07536 187303003957 cheY-homologous receiver domain; Region: REC; smart00448 187303003958 active site 187303003959 phosphorylation site [posttranslational modification] 187303003960 intermolecular recognition site; other site 187303003961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 187303003962 Peptidase M15; Region: Peptidase_M15_3; cl01194 187303003963 malate dehydrogenase; Reviewed; Region: PRK06223 187303003964 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 187303003965 NAD(P) binding site [chemical binding]; other site 187303003966 dimer interface [polypeptide binding]; other site 187303003967 tetramer (dimer of dimers) interface [polypeptide binding]; other site 187303003968 substrate binding site [chemical binding]; other site 187303003969 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 187303003970 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 187303003971 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 187303003972 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 187303003973 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 187303003974 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 187303003975 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 187303003976 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 187303003977 Walker A motif; other site 187303003978 ATP binding site [chemical binding]; other site 187303003979 Walker B motif; other site 187303003980 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 187303003981 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 187303003982 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 187303003983 general secretion pathway protein J; Validated; Region: PRK08808 187303003984 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 187303003985 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 187303003986 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187303003987 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 187303003988 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 187303003989 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 187303003990 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 187303003991 Verru_Chthon cassette protein A; Region: Verru_Chthon_A; TIGR02600 187303003992 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 187303003993 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 187303003994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 187303003995 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 187303003996 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 187303003997 cyclase homology domain; Region: CHD; cd07302 187303003998 nucleotidyl binding site; other site 187303003999 metal binding site [ion binding]; metal-binding site 187303004000 dimer interface [polypeptide binding]; other site 187303004001 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 187303004002 TPR motif; other site 187303004003 binding surface 187303004004 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 187303004005 binding surface 187303004006 TPR motif; other site 187303004007 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 187303004008 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 187303004009 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 187303004010 active site 187303004011 homodimer interface [polypeptide binding]; other site 187303004012 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 187303004013 active site 187303004014 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 187303004015 CHASE3 domain; Region: CHASE3; pfam05227 187303004016 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 187303004017 dimer interface [polypeptide binding]; other site 187303004018 phosphorylation site [posttranslational modification] 187303004019 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 187303004020 ATP binding site [chemical binding]; other site 187303004021 Mg2+ binding site [ion binding]; other site 187303004022 G-X-G motif; other site 187303004023 Response regulator receiver domain; Region: Response_reg; pfam00072 187303004024 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 187303004025 active site 187303004026 phosphorylation site [posttranslational modification] 187303004027 intermolecular recognition site; other site 187303004028 dimerization interface [polypeptide binding]; other site 187303004029 amidase; Provisional; Region: PRK06170 187303004030 Amidase; Region: Amidase; cl11426 187303004031 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 187303004032 NADPH bind site [chemical binding]; other site 187303004033 putative FMN binding site [chemical binding]; other site 187303004034 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 187303004035 YcaO-like family; Region: YcaO; pfam02624 187303004036 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 187303004037 nickel responsive regulator; Provisional; Region: PRK02967 187303004038 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 187303004039 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 187303004040 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303004041 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303004042 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 187303004043 DNA primase; Validated; Region: dnaG; PRK05667 187303004044 CHC2 zinc finger; Region: zf-CHC2; cl17510 187303004045 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 187303004046 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 187303004047 active site 187303004048 metal binding site [ion binding]; metal-binding site 187303004049 interdomain interaction site; other site 187303004050 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 187303004051 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 187303004052 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 187303004053 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 187303004054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303004055 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 187303004056 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 187303004057 DNA binding residues [nucleotide binding] 187303004058 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 187303004059 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 187303004060 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 187303004061 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 187303004062 putative substrate translocation pore; other site 187303004063 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 187303004064 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 187303004065 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 187303004066 substrate binding pocket [chemical binding]; other site 187303004067 chain length determination region; other site 187303004068 substrate-Mg2+ binding site; other site 187303004069 catalytic residues [active] 187303004070 aspartate-rich region 1; other site 187303004071 active site lid residues [active] 187303004072 aspartate-rich region 2; other site 187303004073 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 187303004074 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 187303004075 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 187303004076 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 187303004077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 187303004078 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 187303004079 Uncharacterized conserved protein [Function unknown]; Region: COG2308 187303004080 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303004081 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 187303004082 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 187303004083 catalytic residues [active] 187303004084 dimer interface [polypeptide binding]; other site 187303004085 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 187303004086 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 187303004087 active site 187303004088 phosphorylation site [posttranslational modification] 187303004089 intermolecular recognition site; other site 187303004090 dimerization interface [polypeptide binding]; other site 187303004091 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 187303004092 Walker A motif; other site 187303004093 ATP binding site [chemical binding]; other site 187303004094 Walker B motif; other site 187303004095 arginine finger; other site 187303004096 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 187303004097 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 187303004098 active site 187303004099 dimerization interface [polypeptide binding]; other site 187303004100 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 187303004101 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 187303004102 NAD(P) binding site [chemical binding]; other site 187303004103 catalytic residues [active] 187303004104 Protein of unknown function (DUF779); Region: DUF779; pfam05610 187303004105 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 187303004106 active site 187303004107 Int/Topo IB signature motif; other site 187303004108 DNA binding site [nucleotide binding] 187303004109 Helix-turn-helix domain; Region: HTH_17; cl17695 187303004110 T5orf172 domain; Region: T5orf172; pfam10544 187303004111 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 187303004112 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 187303004113 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 187303004114 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 187303004115 HSP70 interaction site [polypeptide binding]; other site 187303004116 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 187303004117 active site 187303004118 catalytic site [active] 187303004119 substrate binding site [chemical binding]; other site 187303004120 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 187303004121 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; cl17512 187303004122 beta-clamp/clamp loader binding surface; other site 187303004123 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 187303004124 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; cl00083 187303004125 active site 187303004126 hypothetical protein; Provisional; Region: PRK09946 187303004127 YcfA-like protein; Region: YcfA; pfam07927 187303004128 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 187303004129 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 187303004130 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 187303004131 Predicted transcriptional regulator [Transcription]; Region: COG2932 187303004132 Catalytic site [active] 187303004133 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 187303004134 GcrA cell cycle regulator; Region: GcrA; cl11564 187303004135 HD domain; Region: HD_3; cl17350 187303004136 MT-A70; Region: MT-A70; cl01947 187303004137 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 187303004138 ATP binding site [chemical binding]; other site 187303004139 putative Mg++ binding site [ion binding]; other site 187303004140 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 187303004141 nucleotide binding region [chemical binding]; other site 187303004142 ATP-binding site [chemical binding]; other site 187303004143 Helix-turn-helix domain; Region: HTH_36; pfam13730 187303004144 Transcription termination factor nusG; Region: NusG; pfam02357 187303004145 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; cl00083 187303004146 active site 187303004147 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 187303004148 Phage portal protein; Region: Phage_portal; pfam04860 187303004149 Phage-related protein [Function unknown]; Region: COG4695; cl01923 187303004150 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 187303004151 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 187303004152 tandem repeat interface [polypeptide binding]; other site 187303004153 oligomer interface [polypeptide binding]; other site 187303004154 active site residues [active] 187303004155 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 187303004156 Phage capsid family; Region: Phage_capsid; pfam05065 187303004157 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 187303004158 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 187303004159 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 187303004160 Phosphotriesterase family; Region: PTE; cl17343 187303004161 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 187303004162 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 187303004163 NlpC/P60 family; Region: NLPC_P60; cl17555 187303004164 major tropism determinant; Region: mtd; PHA00653 187303004165 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 187303004166 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 187303004167 catalytic residues [active] 187303004168 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 187303004169 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 187303004170 Cl- selectivity filter; other site 187303004171 Cl- binding residues [ion binding]; other site 187303004172 pore gating glutamate residue; other site 187303004173 dimer interface [polypeptide binding]; other site 187303004174 H+/Cl- coupling transport residue; other site 187303004175 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 187303004176 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 187303004177 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 187303004178 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 187303004179 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 187303004180 hexamer interface [polypeptide binding]; other site 187303004181 ligand binding site [chemical binding]; other site 187303004182 putative active site [active] 187303004183 NAD(P) binding site [chemical binding]; other site 187303004184 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 187303004185 amino acid transporter; Region: 2A0306; TIGR00909 187303004186 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 187303004187 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 187303004188 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 187303004189 active site lid residues [active] 187303004190 substrate binding pocket [chemical binding]; other site 187303004191 catalytic residues [active] 187303004192 substrate-Mg2+ binding site; other site 187303004193 aspartate-rich region 1; other site 187303004194 aspartate-rich region 2; other site 187303004195 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 187303004196 substrate binding pocket [chemical binding]; other site 187303004197 substrate-Mg2+ binding site; other site 187303004198 aspartate-rich region 1; other site 187303004199 aspartate-rich region 2; other site 187303004200 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 187303004201 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 187303004202 active site 187303004203 ChaB; Region: ChaB; cl01887 187303004204 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 187303004205 active site 187303004206 dimer interface [polypeptide binding]; other site 187303004207 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 187303004208 S-adenosylmethionine binding site [chemical binding]; other site 187303004209 chaperone protein DnaJ; Provisional; Region: PRK10767 187303004210 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 187303004211 HSP70 interaction site [polypeptide binding]; other site 187303004212 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 187303004213 substrate binding site [polypeptide binding]; other site 187303004214 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 187303004215 Zn binding sites [ion binding]; other site 187303004216 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 187303004217 dimer interface [polypeptide binding]; other site 187303004218 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 187303004219 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 187303004220 nucleotide binding site [chemical binding]; other site 187303004221 NEF interaction site [polypeptide binding]; other site 187303004222 SBD interface [polypeptide binding]; other site 187303004223 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303004224 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303004225 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303004226 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 187303004227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303004228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303004229 nitrilase; Region: PLN02798 187303004230 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 187303004231 putative active site [active] 187303004232 catalytic triad [active] 187303004233 dimer interface [polypeptide binding]; other site 187303004234 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 187303004235 IHF - DNA interface [nucleotide binding]; other site 187303004236 IHF dimer interface [polypeptide binding]; other site 187303004237 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 187303004238 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 187303004239 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 187303004240 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 187303004241 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 187303004242 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 187303004243 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 187303004244 active site 187303004245 purine riboside binding site [chemical binding]; other site 187303004246 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 187303004247 putative transporter; Provisional; Region: PRK10504 187303004248 putative substrate translocation pore; other site 187303004249 hypothetical protein; Reviewed; Region: PRK00024 187303004250 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 187303004251 MPN+ (JAMM) motif; other site 187303004252 Zinc-binding site [ion binding]; other site 187303004253 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 187303004254 active site 187303004255 OpgC protein; Region: OpgC_C; pfam10129 187303004256 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 187303004257 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 187303004258 putative MPT binding site; other site 187303004259 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303004260 active site 187303004261 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 187303004262 iron-sulfur cluster [ion binding]; other site 187303004263 [2Fe-2S] cluster binding site [ion binding]; other site 187303004264 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 187303004265 iron-sulfur cluster [ion binding]; other site 187303004266 [2Fe-2S] cluster binding site [ion binding]; other site 187303004267 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 187303004268 non-specific DNA binding site [nucleotide binding]; other site 187303004269 salt bridge; other site 187303004270 sequence-specific DNA binding site [nucleotide binding]; other site 187303004271 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 187303004272 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 187303004273 Active site cavity [active] 187303004274 catalytic acid [active] 187303004275 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 187303004276 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 187303004277 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 187303004278 FeS/SAM binding site; other site 187303004279 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 187303004280 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 187303004281 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 187303004282 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 187303004283 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 187303004284 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 187303004285 active site 187303004286 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 187303004287 active site 187303004288 Predicted acetyltransferase [General function prediction only]; Region: COG3153 187303004289 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 187303004290 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 187303004291 active site 187303004292 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 187303004293 dimer interface [polypeptide binding]; other site 187303004294 catalytic residues [active] 187303004295 substrate binding site [chemical binding]; other site 187303004296 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 187303004297 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 187303004298 Creatinine amidohydrolase; Region: Creatininase; pfam02633 187303004299 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 187303004300 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 187303004301 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 187303004302 RNA binding surface [nucleotide binding]; other site 187303004303 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 187303004304 active site 187303004305 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 187303004306 B1 nucleotide binding pocket [chemical binding]; other site 187303004307 B2 nucleotide binding pocket [chemical binding]; other site 187303004308 CAS motifs; other site 187303004309 active site 187303004310 Uncharacterized conserved protein [Function unknown]; Region: COG1262 187303004311 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 187303004312 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 187303004313 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 187303004314 Switch I region; other site 187303004315 G2 box; other site 187303004316 putative GEF interaction site [polypeptide binding]; other site 187303004317 G3 box; other site 187303004318 Switch II region; other site 187303004319 GTP/Mg2+ binding site [chemical binding]; other site 187303004320 G4 box; other site 187303004321 G5 box; other site 187303004322 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 187303004323 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 187303004324 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 187303004325 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187303004326 active site 187303004327 dimer interface [polypeptide binding]; other site 187303004328 motif 2; other site 187303004329 motif 3; other site 187303004330 elongation factor P; Validated; Region: PRK00529 187303004331 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 187303004332 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 187303004333 RNA binding site [nucleotide binding]; other site 187303004334 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 187303004335 RNA binding site [nucleotide binding]; other site 187303004336 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 187303004337 additional DNA contacts [nucleotide binding]; other site 187303004338 mismatch recognition site; other site 187303004339 active site 187303004340 zinc binding site [ion binding]; other site 187303004341 DNA intercalation site [nucleotide binding]; other site 187303004342 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 187303004343 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 187303004344 cofactor binding site; other site 187303004345 DNA binding site [nucleotide binding] 187303004346 substrate interaction site [chemical binding]; other site 187303004347 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 187303004348 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 187303004349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 187303004350 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 187303004351 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 187303004352 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 187303004353 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 187303004354 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 187303004355 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 187303004356 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 187303004357 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 187303004358 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 187303004359 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 187303004360 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 187303004361 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 187303004362 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 187303004363 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 187303004364 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 187303004365 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 187303004366 4Fe-4S binding domain; Region: Fer4; pfam00037 187303004367 4Fe-4S binding domain; Region: Fer4; pfam00037 187303004368 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 187303004369 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 187303004370 NADH dehydrogenase subunit G; Validated; Region: PRK09130 187303004371 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 187303004372 catalytic loop [active] 187303004373 iron binding site [ion binding]; other site 187303004374 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 187303004375 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 187303004376 molybdopterin cofactor binding site; other site 187303004377 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 187303004378 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 187303004379 SLBB domain; Region: SLBB; pfam10531 187303004380 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 187303004381 NADH dehydrogenase subunit E; Validated; Region: PRK07539 187303004382 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 187303004383 putative dimer interface [polypeptide binding]; other site 187303004384 [2Fe-2S] cluster binding site [ion binding]; other site 187303004385 NADH dehydrogenase subunit D; Validated; Region: PRK06075 187303004386 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 187303004387 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 187303004388 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 187303004389 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 187303004390 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 187303004391 ATP12 chaperone protein; Region: ATP12; cl02228 187303004392 Beta protein; Region: Beta_protein; pfam14350 187303004393 Domain of unknown function (DUF955); Region: DUF955; pfam06114 187303004394 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 187303004395 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 187303004396 RNA binding surface [nucleotide binding]; other site 187303004397 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 187303004398 active site 187303004399 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187303004400 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 187303004401 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 187303004402 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 187303004403 hydrophobic ligand binding site; other site 187303004404 PAS domain; Region: PAS_9; pfam13426 187303004405 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 187303004406 putative active site [active] 187303004407 heme pocket [chemical binding]; other site 187303004408 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 187303004409 16S/18S rRNA binding site [nucleotide binding]; other site 187303004410 S13e-L30e interaction site [polypeptide binding]; other site 187303004411 25S rRNA binding site [nucleotide binding]; other site 187303004412 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 187303004413 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 187303004414 RNase E interface [polypeptide binding]; other site 187303004415 trimer interface [polypeptide binding]; other site 187303004416 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 187303004417 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 187303004418 RNase E interface [polypeptide binding]; other site 187303004419 trimer interface [polypeptide binding]; other site 187303004420 active site 187303004421 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 187303004422 putative nucleic acid binding region [nucleotide binding]; other site 187303004423 G-X-X-G motif; other site 187303004424 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 187303004425 RNA binding site [nucleotide binding]; other site 187303004426 domain interface; other site 187303004427 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303004428 Domain of unknown function DUF20; Region: UPF0118; pfam01594 187303004429 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 187303004430 Family description; Region: UvrD_C_2; pfam13538 187303004431 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 187303004432 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 187303004433 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 187303004434 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 187303004435 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 187303004436 Substrate binding site; other site 187303004437 metal-binding site 187303004438 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 187303004439 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 187303004440 Phosphotransferase enzyme family; Region: APH; pfam01636 187303004441 PAS fold; Region: PAS_7; pfam12860 187303004442 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 187303004443 PAS domain; Region: PAS; smart00091 187303004444 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 187303004445 dimer interface [polypeptide binding]; other site 187303004446 phosphorylation site [posttranslational modification] 187303004447 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 187303004448 ATP binding site [chemical binding]; other site 187303004449 Mg2+ binding site [ion binding]; other site 187303004450 G-X-G motif; other site 187303004451 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 187303004452 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 187303004453 homotetramer interface [polypeptide binding]; other site 187303004454 ligand binding site [chemical binding]; other site 187303004455 catalytic site [active] 187303004456 NAD binding site [chemical binding]; other site 187303004457 osmolarity response regulator; Provisional; Region: ompR; PRK09468 187303004458 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 187303004459 active site 187303004460 phosphorylation site [posttranslational modification] 187303004461 intermolecular recognition site; other site 187303004462 dimerization interface [polypeptide binding]; other site 187303004463 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 187303004464 DNA binding site [nucleotide binding] 187303004465 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303004466 HAMP domain; Region: HAMP; pfam00672 187303004467 dimerization interface [polypeptide binding]; other site 187303004468 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 187303004469 dimer interface [polypeptide binding]; other site 187303004470 phosphorylation site [posttranslational modification] 187303004471 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 187303004472 ATP binding site [chemical binding]; other site 187303004473 Mg2+ binding site [ion binding]; other site 187303004474 G-X-G motif; other site 187303004475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303004476 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 187303004477 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 187303004478 putative metal binding site [ion binding]; other site 187303004479 short chain dehydrogenase; Provisional; Region: PRK06181 187303004480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303004481 NAD(P) binding site [chemical binding]; other site 187303004482 active site 187303004483 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 187303004484 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 187303004485 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 187303004486 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 187303004487 active site 187303004488 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 187303004489 MgtE intracellular N domain; Region: MgtE_N; smart00924 187303004490 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 187303004491 Divalent cation transporter; Region: MgtE; pfam01769 187303004492 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 187303004493 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 187303004494 NodB motif; other site 187303004495 active site 187303004496 catalytic site [active] 187303004497 metal binding site [ion binding]; metal-binding site 187303004498 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 187303004499 lipoate-protein ligase B; Provisional; Region: PRK14341 187303004500 biotin synthase; Region: bioB; TIGR00433 187303004501 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 187303004502 FeS/SAM binding site; other site 187303004503 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 187303004504 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 187303004505 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 187303004506 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303004507 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187303004508 active site residue [active] 187303004509 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 187303004510 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303004511 Cytochrome c; Region: Cytochrom_C; pfam00034 187303004512 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 187303004513 Cytochrome c; Region: Cytochrom_C; cl11414 187303004514 Cytochrome c; Region: Cytochrom_C; cl11414 187303004515 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303004516 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 187303004517 S-adenosylmethionine binding site [chemical binding]; other site 187303004518 Class I aldolases; Region: Aldolase_Class_I; cl17187 187303004519 catalytic residue [active] 187303004520 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 187303004521 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 187303004522 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 187303004523 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 187303004524 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 187303004525 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 187303004526 dimer interface [polypeptide binding]; other site 187303004527 active site 187303004528 metal binding site [ion binding]; metal-binding site 187303004529 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 187303004530 heme-binding site [chemical binding]; other site 187303004531 Predicted transcriptional regulator [Transcription]; Region: COG2378 187303004532 HTH domain; Region: HTH_11; pfam08279 187303004533 WYL domain; Region: WYL; pfam13280 187303004534 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303004535 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 187303004536 putative C-terminal domain interface [polypeptide binding]; other site 187303004537 putative GSH binding site (G-site) [chemical binding]; other site 187303004538 putative dimer interface [polypeptide binding]; other site 187303004539 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 187303004540 dimer interface [polypeptide binding]; other site 187303004541 N-terminal domain interface [polypeptide binding]; other site 187303004542 putative substrate binding pocket (H-site) [chemical binding]; other site 187303004543 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 187303004544 dimerization interface [polypeptide binding]; other site 187303004545 putative DNA binding site [nucleotide binding]; other site 187303004546 putative Zn2+ binding site [ion binding]; other site 187303004547 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 187303004548 putative hydrophobic ligand binding site [chemical binding]; other site 187303004549 Predicted transcriptional regulator [Transcription]; Region: COG2378 187303004550 HTH domain; Region: HTH_11; pfam08279 187303004551 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 187303004552 active site residue [active] 187303004553 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 187303004554 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 187303004555 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 187303004556 DNA binding residues [nucleotide binding] 187303004557 dimer interface [polypeptide binding]; other site 187303004558 putative metal binding site [ion binding]; other site 187303004559 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 187303004560 S-adenosylmethionine binding site [chemical binding]; other site 187303004561 YtkA-like; Region: YtkA; pfam13115 187303004562 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 187303004563 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 187303004564 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303004565 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 187303004566 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 187303004567 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303004568 Soluble P-type ATPase [General function prediction only]; Region: COG4087 187303004569 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 187303004570 S-adenosylmethionine binding site [chemical binding]; other site 187303004571 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 187303004572 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 187303004573 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 187303004574 catalytic residues [active] 187303004575 catalytic nucleophile [active] 187303004576 Recombinase; Region: Recombinase; pfam07508 187303004577 ParB-like nuclease domain; Region: ParB; smart00470 187303004578 RepB plasmid partitioning protein; Region: RepB; pfam07506 187303004579 ParB-like nuclease domain; Region: ParBc; cl02129 187303004580 RepB plasmid partitioning protein; Region: RepB; pfam07506 187303004581 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 187303004582 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 187303004583 active site 187303004584 nucleophile elbow; other site 187303004585 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 187303004586 active site 187303004587 metal binding site [ion binding]; metal-binding site 187303004588 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 187303004589 ParB-like nuclease domain; Region: ParB; smart00470 187303004590 Toprim domain; Region: Toprim_3; pfam13362 187303004591 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 187303004592 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 187303004593 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 187303004594 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 187303004595 Uncharacterized conserved protein [Function unknown]; Region: COG5489 187303004596 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303004597 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 187303004598 non-specific DNA binding site [nucleotide binding]; other site 187303004599 salt bridge; other site 187303004600 sequence-specific DNA binding site [nucleotide binding]; other site 187303004601 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 187303004602 Helix-turn-helix domain; Region: HTH_17; pfam12728 187303004603 Replication initiator protein A; Region: RPA; pfam10134 187303004604 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 187303004605 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 187303004606 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 187303004607 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 187303004608 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303004609 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303004610 catalytic residue [active] 187303004611 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 187303004612 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 187303004613 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 187303004614 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 187303004615 Walker A motif; other site 187303004616 ATP binding site [chemical binding]; other site 187303004617 Walker B motif; other site 187303004618 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 187303004619 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 187303004620 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 187303004621 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 187303004622 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 187303004623 putative metal binding site [ion binding]; other site 187303004624 thymidylate synthase; Provisional; Region: thyA; PRK00956 187303004625 Domain of unknown function (DUF955); Region: DUF955; pfam06114 187303004626 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303004627 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 187303004628 non-specific DNA binding site [nucleotide binding]; other site 187303004629 salt bridge; other site 187303004630 sequence-specific DNA binding site [nucleotide binding]; other site 187303004631 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 187303004632 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 187303004633 ATP binding site [chemical binding]; other site 187303004634 Walker A motif; other site 187303004635 hexamer interface [polypeptide binding]; other site 187303004636 Walker B motif; other site 187303004637 TrbC/VIRB2 family; Region: TrbC; pfam04956 187303004638 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 187303004639 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 187303004640 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 187303004641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303004642 Walker A/P-loop; other site 187303004643 ATP binding site [chemical binding]; other site 187303004644 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303004645 Walker B; other site 187303004646 D-loop; other site 187303004647 H-loop/switch region; other site 187303004648 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 187303004649 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 187303004650 conjugal transfer protein TrbL; Provisional; Region: PRK13875 187303004651 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 187303004652 conjugal transfer protein TrbF; Provisional; Region: PRK13872 187303004653 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 187303004654 VirB7 interaction site; other site 187303004655 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 187303004656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187303004657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303004658 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 187303004659 dimerization interface [polypeptide binding]; other site 187303004660 substrate binding pocket [chemical binding]; other site 187303004661 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303004662 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 187303004663 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303004664 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 187303004665 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303004666 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303004667 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303004668 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 187303004669 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 187303004670 Walker A/P-loop; other site 187303004671 ATP binding site [chemical binding]; other site 187303004672 Q-loop/lid; other site 187303004673 ABC transporter signature motif; other site 187303004674 Walker B; other site 187303004675 D-loop; other site 187303004676 H-loop/switch region; other site 187303004677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303004678 Walker A/P-loop; other site 187303004679 ATP binding site [chemical binding]; other site 187303004680 Q-loop/lid; other site 187303004681 ABC transporter signature motif; other site 187303004682 Walker B; other site 187303004683 D-loop; other site 187303004684 H-loop/switch region; other site 187303004685 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 187303004686 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303004687 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 187303004688 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303004689 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 187303004690 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 187303004691 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 187303004692 nucleotide binding site [chemical binding]; other site 187303004693 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 187303004694 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 187303004695 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303004696 Walker A/P-loop; other site 187303004697 ATP binding site [chemical binding]; other site 187303004698 Q-loop/lid; other site 187303004699 ABC transporter signature motif; other site 187303004700 Walker B; other site 187303004701 D-loop; other site 187303004702 H-loop/switch region; other site 187303004703 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 187303004704 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 187303004705 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 187303004706 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 187303004707 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 187303004708 active site 187303004709 catalytic site [active] 187303004710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 187303004711 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 187303004712 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 187303004713 catalytic residues [active] 187303004714 catalytic nucleophile [active] 187303004715 Recombinase; Region: Recombinase; pfam07508 187303004716 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 187303004717 NACHT domain; Region: NACHT; pfam05729 187303004718 Conjugal transfer protein TraD; Region: TraD; pfam06412 187303004719 Conjugal transfer protein TraD; Region: TraD; pfam06412 187303004720 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 187303004721 MobA/MobL family; Region: MobA_MobL; pfam03389 187303004722 AAA domain; Region: AAA_30; pfam13604 187303004723 Family description; Region: UvrD_C_2; pfam13538 187303004724 integrase; Provisional; Region: PRK09692 187303004725 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 187303004726 active site 187303004727 Int/Topo IB signature motif; other site 187303004728 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 187303004729 homotrimer interaction site [polypeptide binding]; other site 187303004730 putative active site [active] 187303004731 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 187303004732 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 187303004733 ATP binding site [chemical binding]; other site 187303004734 substrate interface [chemical binding]; other site 187303004735 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 187303004736 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 187303004737 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 187303004738 putative active site [active] 187303004739 putative metal binding site [ion binding]; other site 187303004740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303004741 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 187303004742 non-specific DNA binding site [nucleotide binding]; other site 187303004743 salt bridge; other site 187303004744 sequence-specific DNA binding site [nucleotide binding]; other site 187303004745 Cupin domain; Region: Cupin_2; pfam07883 187303004746 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 187303004747 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 187303004748 heme binding site [chemical binding]; other site 187303004749 ferroxidase pore; other site 187303004750 ferroxidase diiron center [ion binding]; other site 187303004751 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 187303004752 glycerol kinase; Region: glycerol_kin; TIGR01311 187303004753 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 187303004754 N- and C-terminal domain interface [polypeptide binding]; other site 187303004755 active site 187303004756 MgATP binding site [chemical binding]; other site 187303004757 catalytic site [active] 187303004758 metal binding site [ion binding]; metal-binding site 187303004759 glycerol binding site [chemical binding]; other site 187303004760 homotetramer interface [polypeptide binding]; other site 187303004761 homodimer interface [polypeptide binding]; other site 187303004762 FBP binding site [chemical binding]; other site 187303004763 protein IIAGlc interface [polypeptide binding]; other site 187303004764 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 187303004765 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 187303004766 minor groove reading motif; other site 187303004767 helix-hairpin-helix signature motif; other site 187303004768 substrate binding pocket [chemical binding]; other site 187303004769 active site 187303004770 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 187303004771 DNA binding and oxoG recognition site [nucleotide binding] 187303004772 Protein of unknown function (DUF721); Region: DUF721; cl02324 187303004773 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 187303004774 ribonuclease Z; Provisional; Region: PRK02126 187303004775 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 187303004776 inhibitor binding site; inhibition site 187303004777 catalytic motif [active] 187303004778 Catalytic residue [active] 187303004779 Active site flap [active] 187303004780 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 187303004781 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187303004782 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 187303004783 N-terminal plug; other site 187303004784 ligand-binding site [chemical binding]; other site 187303004785 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 187303004786 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 187303004787 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 187303004788 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 187303004789 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 187303004790 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 187303004791 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 187303004792 molybdenum-pterin binding domain; Region: Mop; TIGR00638 187303004793 TOBE domain; Region: TOBE; cl01440 187303004794 HdeA/HdeB family; Region: HdeA; cl05752 187303004795 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 187303004796 active site 187303004797 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 187303004798 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 187303004799 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 187303004800 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 187303004801 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 187303004802 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 187303004803 catalytic nucleophile [active] 187303004804 Cupin domain; Region: Cupin_2; cl17218 187303004805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303004806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 187303004807 active site 187303004808 phosphorylation site [posttranslational modification] 187303004809 intermolecular recognition site; other site 187303004810 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 187303004811 dimerization interface [polypeptide binding]; other site 187303004812 DNA binding residues [nucleotide binding] 187303004813 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 187303004814 active site 187303004815 catalytic residues [active] 187303004816 two-component response regulator; Provisional; Region: PRK09191 187303004817 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 187303004818 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 187303004819 active site 187303004820 phosphorylation site [posttranslational modification] 187303004821 intermolecular recognition site; other site 187303004822 dimerization interface [polypeptide binding]; other site 187303004823 RNA polymerase sigma factor; Provisional; Region: PRK12516 187303004824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303004825 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 187303004826 DNA binding residues [nucleotide binding] 187303004827 PAS domain S-box; Region: sensory_box; TIGR00229 187303004828 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 187303004829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303004830 HWE histidine kinase; Region: HWE_HK; smart00911 187303004831 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 187303004832 Domain of unknown function DUF21; Region: DUF21; pfam01595 187303004833 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 187303004834 Transporter associated domain; Region: CorC_HlyC; smart01091 187303004835 shikimate kinase; Provisional; Region: PRK13946 187303004836 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 187303004837 ADP binding site [chemical binding]; other site 187303004838 magnesium binding site [ion binding]; other site 187303004839 putative shikimate binding site; other site 187303004840 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 187303004841 active site 187303004842 dimer interface [polypeptide binding]; other site 187303004843 metal binding site [ion binding]; metal-binding site 187303004844 SnoaL-like domain; Region: SnoaL_2; pfam12680 187303004845 SnoaL-like domain; Region: SnoaL_2; pfam12680 187303004846 ketol-acid reductoisomerase; Provisional; Region: PRK05479 187303004847 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 187303004848 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 187303004849 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 187303004850 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 187303004851 putative valine binding site [chemical binding]; other site 187303004852 dimer interface [polypeptide binding]; other site 187303004853 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 187303004854 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 187303004855 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187303004856 PYR/PP interface [polypeptide binding]; other site 187303004857 dimer interface [polypeptide binding]; other site 187303004858 TPP binding site [chemical binding]; other site 187303004859 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187303004860 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 187303004861 TPP-binding site [chemical binding]; other site 187303004862 dimer interface [polypeptide binding]; other site 187303004863 short chain dehydrogenase; Provisional; Region: PRK06172 187303004864 classical (c) SDRs; Region: SDR_c; cd05233 187303004865 NAD(P) binding site [chemical binding]; other site 187303004866 active site 187303004867 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 187303004868 glutathionine S-transferase; Provisional; Region: PRK10542 187303004869 C-terminal domain interface [polypeptide binding]; other site 187303004870 GSH binding site (G-site) [chemical binding]; other site 187303004871 dimer interface [polypeptide binding]; other site 187303004872 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 187303004873 dimer interface [polypeptide binding]; other site 187303004874 N-terminal domain interface [polypeptide binding]; other site 187303004875 substrate binding pocket (H-site) [chemical binding]; other site 187303004876 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 187303004877 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 187303004878 active site 187303004879 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 187303004880 Cytochrome P450; Region: p450; cl12078 187303004881 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 187303004882 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 187303004883 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 187303004884 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 187303004885 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 187303004886 Walker A/P-loop; other site 187303004887 ATP binding site [chemical binding]; other site 187303004888 Q-loop/lid; other site 187303004889 ABC transporter signature motif; other site 187303004890 Walker B; other site 187303004891 D-loop; other site 187303004892 H-loop/switch region; other site 187303004893 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 187303004894 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 187303004895 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 187303004896 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 187303004897 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 187303004898 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 187303004899 putative NAD(P) binding site [chemical binding]; other site 187303004900 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 187303004901 Fatty acid desaturase; Region: FA_desaturase; pfam00487 187303004902 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 187303004903 Di-iron ligands [ion binding]; other site 187303004904 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 187303004905 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 187303004906 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 187303004907 B12 binding site [chemical binding]; other site 187303004908 cobalt ligand [ion binding]; other site 187303004909 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 187303004910 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 187303004911 Bacitracin resistance protein BacA; Region: BacA; pfam02673 187303004912 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 187303004913 DNA methylase; Region: N6_N4_Mtase; pfam01555 187303004914 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 187303004915 RNA/DNA hybrid binding site [nucleotide binding]; other site 187303004916 active site 187303004917 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 187303004918 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 187303004919 FeS/SAM binding site; other site 187303004920 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 187303004921 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 187303004922 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 187303004923 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 187303004924 putative substrate translocation pore; other site 187303004925 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187303004926 putative acyl-acceptor binding pocket; other site 187303004927 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 187303004928 acyl-activating enzyme (AAE) consensus motif; other site 187303004929 putative AMP binding site [chemical binding]; other site 187303004930 WHG domain; Region: WHG; pfam13305 187303004931 hypothetical protein; Provisional; Region: PRK10621 187303004932 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 187303004933 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 187303004934 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303004935 catalytic residues [active] 187303004936 central insert; other site 187303004937 heme exporter protein CcmC; Region: ccmC; TIGR01191 187303004938 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 187303004939 C-terminal peptidase (prc); Region: prc; TIGR00225 187303004940 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 187303004941 protein binding site [polypeptide binding]; other site 187303004942 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 187303004943 Catalytic dyad [active] 187303004944 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 187303004945 Peptidase family M23; Region: Peptidase_M23; pfam01551 187303004946 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 187303004947 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 187303004948 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 187303004949 active site 187303004950 catalytic site [active] 187303004951 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 187303004952 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 187303004953 glycogen synthase; Provisional; Region: PRK14099 187303004954 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 187303004955 ADP-binding pocket [chemical binding]; other site 187303004956 homodimer interface [polypeptide binding]; other site 187303004957 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 187303004958 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 187303004959 ligand binding site; other site 187303004960 oligomer interface; other site 187303004961 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 187303004962 dimer interface [polypeptide binding]; other site 187303004963 N-terminal domain interface [polypeptide binding]; other site 187303004964 sulfate 1 binding site; other site 187303004965 glycogen branching enzyme; Provisional; Region: PRK05402 187303004966 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 187303004967 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 187303004968 active site 187303004969 catalytic site [active] 187303004970 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 187303004971 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 187303004972 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 187303004973 homodimer interface [polypeptide binding]; other site 187303004974 active site pocket [active] 187303004975 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 187303004976 ligand binding site [chemical binding]; other site 187303004977 DNA polymerase III subunit beta; Validated; Region: PRK05643 187303004978 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 187303004979 putative DNA binding surface [nucleotide binding]; other site 187303004980 dimer interface [polypeptide binding]; other site 187303004981 beta-clamp/clamp loader binding surface; other site 187303004982 beta-clamp/translesion DNA polymerase binding surface; other site 187303004983 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 187303004984 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 187303004985 Transglycosylase; Region: Transgly; pfam00912 187303004986 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 187303004987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 187303004988 Iron permease FTR1 family; Region: FTR1; cl00475 187303004989 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 187303004990 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 187303004991 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 187303004992 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 187303004993 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 187303004994 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 187303004995 putative homodimer interface [polypeptide binding]; other site 187303004996 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 187303004997 heterodimer interface [polypeptide binding]; other site 187303004998 homodimer interface [polypeptide binding]; other site 187303004999 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 187303005000 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 187303005001 23S rRNA interface [nucleotide binding]; other site 187303005002 L7/L12 interface [polypeptide binding]; other site 187303005003 putative thiostrepton binding site; other site 187303005004 L25 interface [polypeptide binding]; other site 187303005005 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 187303005006 mRNA/rRNA interface [nucleotide binding]; other site 187303005007 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 187303005008 CoA binding domain; Region: CoA_binding; smart00881 187303005009 CoA-ligase; Region: Ligase_CoA; pfam00549 187303005010 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 187303005011 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 187303005012 TPP-binding site [chemical binding]; other site 187303005013 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 187303005014 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 187303005015 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 187303005016 E3 interaction surface; other site 187303005017 lipoyl attachment site [posttranslational modification]; other site 187303005018 e3 binding domain; Region: E3_binding; pfam02817 187303005019 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 187303005020 Uncharacterized small protein [Function unknown]; Region: COG5568 187303005021 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 187303005022 Domain of unknown function DUF21; Region: DUF21; pfam01595 187303005023 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 187303005024 Transporter associated domain; Region: CorC_HlyC; smart01091 187303005025 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 187303005026 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 187303005027 putative dimer interface [polypeptide binding]; other site 187303005028 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 187303005029 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303005030 Bacterial SH3 domain; Region: SH3_3; pfam08239 187303005031 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 187303005032 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 187303005033 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 187303005034 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 187303005035 Switch I; other site 187303005036 Switch II; other site 187303005037 septum formation inhibitor; Reviewed; Region: minC; PRK05177 187303005038 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 187303005039 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 187303005040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303005041 WHG domain; Region: WHG; pfam13305 187303005042 hypothetical protein; Validated; Region: PRK00110 187303005043 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 187303005044 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 187303005045 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 187303005046 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 187303005047 NADP-binding site; other site 187303005048 homotetramer interface [polypeptide binding]; other site 187303005049 substrate binding site [chemical binding]; other site 187303005050 homodimer interface [polypeptide binding]; other site 187303005051 active site 187303005052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005053 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 187303005054 NAD(P) binding site [chemical binding]; other site 187303005055 active site 187303005056 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 187303005057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303005058 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...; Region: adenosine_kinase; cd01168 187303005059 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 187303005060 substrate binding site [chemical binding]; other site 187303005061 ATP binding site [chemical binding]; other site 187303005062 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 187303005063 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 187303005064 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 187303005065 MarR family; Region: MarR_2; pfam12802 187303005066 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 187303005067 ABC1 family; Region: ABC1; cl17513 187303005068 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 187303005069 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 187303005070 S-adenosylmethionine binding site [chemical binding]; other site 187303005071 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 187303005072 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 187303005073 DNA binding site [nucleotide binding] 187303005074 catalytic residue [active] 187303005075 H2TH interface [polypeptide binding]; other site 187303005076 putative catalytic residues [active] 187303005077 turnover-facilitating residue; other site 187303005078 intercalation triad [nucleotide binding]; other site 187303005079 8OG recognition residue [nucleotide binding]; other site 187303005080 putative reading head residues; other site 187303005081 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 187303005082 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 187303005083 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 187303005084 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 187303005085 Walker A/P-loop; other site 187303005086 ATP binding site [chemical binding]; other site 187303005087 Q-loop/lid; other site 187303005088 ABC transporter signature motif; other site 187303005089 Walker B; other site 187303005090 D-loop; other site 187303005091 H-loop/switch region; other site 187303005092 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303005093 ABC-2 type transporter; Region: ABC2_membrane; cl17235 187303005094 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 187303005095 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 187303005096 RNA binding surface [nucleotide binding]; other site 187303005097 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 187303005098 S-adenosylmethionine binding site [chemical binding]; other site 187303005099 TRAM domain; Region: TRAM; cl01282 187303005100 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 187303005101 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 187303005102 FAD binding domain; Region: FAD_binding_4; pfam01565 187303005103 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 187303005104 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 187303005105 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 187303005106 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 187303005107 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 187303005108 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 187303005109 catalytic core [active] 187303005110 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 187303005111 nudix motif; other site 187303005112 Cupin; Region: Cupin_1; smart00835 187303005113 Cupin; Region: Cupin_1; smart00835 187303005114 manganese transport protein MntH; Reviewed; Region: PRK00701 187303005115 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 187303005116 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 187303005117 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 187303005118 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 187303005119 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 187303005120 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 187303005121 lipoyl attachment site [posttranslational modification]; other site 187303005122 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 187303005123 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 187303005124 tetramer interface [polypeptide binding]; other site 187303005125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303005126 catalytic residue [active] 187303005127 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 187303005128 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303005129 catalytic residue [active] 187303005130 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 187303005131 Predicted transcriptional regulator [Transcription]; Region: COG2932 187303005132 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 187303005133 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 187303005134 Catalytic site [active] 187303005135 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 187303005136 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 187303005137 transmembrane helices; other site 187303005138 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 187303005139 putative cation:proton antiport protein; Provisional; Region: PRK10669 187303005140 TrkA-N domain; Region: TrkA_N; pfam02254 187303005141 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303005142 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 187303005143 putative ADP-binding pocket [chemical binding]; other site 187303005144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303005145 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 187303005146 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 187303005147 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 187303005148 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 187303005149 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303005150 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 187303005151 S-adenosylmethionine binding site [chemical binding]; other site 187303005152 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303005153 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 187303005154 ligand binding site [chemical binding]; other site 187303005155 flexible hinge region; other site 187303005156 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; cl17320 187303005157 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 187303005158 YARHG domain; Region: YARHG; pfam13308 187303005159 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 187303005160 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 187303005161 dimer interface [polypeptide binding]; other site 187303005162 substrate binding site [chemical binding]; other site 187303005163 metal binding sites [ion binding]; metal-binding site 187303005164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187303005165 Coenzyme A binding pocket [chemical binding]; other site 187303005166 2-isopropylmalate synthase; Validated; Region: PRK00915 187303005167 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 187303005168 active site 187303005169 catalytic residues [active] 187303005170 metal binding site [ion binding]; metal-binding site 187303005171 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 187303005172 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 187303005173 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 187303005174 phosphopeptide binding site; other site 187303005175 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303005176 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 187303005177 Protein phosphatase 2C; Region: PP2C; pfam00481 187303005178 active site 187303005179 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187303005180 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 187303005181 active site 187303005182 ATP binding site [chemical binding]; other site 187303005183 substrate binding site [chemical binding]; other site 187303005184 activation loop (A-loop); other site 187303005185 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 187303005186 Sel1-like repeats; Region: SEL1; smart00671 187303005187 Sel1-like repeats; Region: SEL1; smart00671 187303005188 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 187303005189 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 187303005190 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 187303005191 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303005192 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303005193 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 187303005194 S-adenosylmethionine binding site [chemical binding]; other site 187303005195 Cupin domain; Region: Cupin_2; pfam07883 187303005196 CCC1-related family of proteins; Region: CCC1_like; cl00278 187303005197 Predicted dehydrogenase [General function prediction only]; Region: COG0579 187303005198 hydroxyglutarate oxidase; Provisional; Region: PRK11728 187303005199 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 187303005200 dimer interface [polypeptide binding]; other site 187303005201 active site 187303005202 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 187303005203 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 187303005204 active site 187303005205 motif I; other site 187303005206 motif II; other site 187303005207 putative translaldolase; Provisional; Region: PRK12376 187303005208 catalytic residue [active] 187303005209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303005210 extended (e) SDRs; Region: SDR_e; cd08946 187303005211 NAD(P) binding site [chemical binding]; other site 187303005212 active site 187303005213 substrate binding site [chemical binding]; other site 187303005214 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005215 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303005216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005217 NAD(P) binding site [chemical binding]; other site 187303005218 active site 187303005219 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303005220 active site 187303005221 nucleotide binding site [chemical binding]; other site 187303005222 HIGH motif; other site 187303005223 KMSKS motif; other site 187303005224 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 187303005225 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 187303005226 substrate binding site [chemical binding]; other site 187303005227 ATP binding site [chemical binding]; other site 187303005228 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187303005229 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 187303005230 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 187303005231 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 187303005232 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 187303005233 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 187303005234 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 187303005235 extended (e) SDRs; Region: SDR_e; cd08946 187303005236 active site 187303005237 substrate binding site [chemical binding]; other site 187303005238 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303005239 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 187303005240 S-adenosylmethionine binding site [chemical binding]; other site 187303005241 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303005242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005243 NAD(P) binding site [chemical binding]; other site 187303005244 active site 187303005245 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 187303005246 TPP-binding site [chemical binding]; other site 187303005247 dimer interface [polypeptide binding]; other site 187303005248 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 187303005249 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 187303005250 PYR/PP interface [polypeptide binding]; other site 187303005251 dimer interface [polypeptide binding]; other site 187303005252 TPP binding site [chemical binding]; other site 187303005253 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187303005254 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 187303005255 nudix motif; other site 187303005256 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303005257 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 187303005258 S-adenosylmethionine binding site [chemical binding]; other site 187303005259 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 187303005260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005261 NAD(P) binding site [chemical binding]; other site 187303005262 active site 187303005263 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 187303005264 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303005265 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 187303005266 S-adenosylmethionine binding site [chemical binding]; other site 187303005267 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 187303005268 Ligand binding site [chemical binding]; other site 187303005269 Electron transfer flavoprotein domain; Region: ETF; pfam01012 187303005270 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 187303005271 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 187303005272 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 187303005273 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 187303005274 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 187303005275 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 187303005276 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 187303005277 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 187303005278 dimerization interface [polypeptide binding]; other site 187303005279 DPS ferroxidase diiron center [ion binding]; other site 187303005280 ion pore; other site 187303005281 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 187303005282 RimM N-terminal domain; Region: RimM; pfam01782 187303005283 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 187303005284 PRC-barrel domain; Region: PRC; pfam05239 187303005285 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 187303005286 signal recognition particle protein; Provisional; Region: PRK10867 187303005287 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 187303005288 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 187303005289 P loop; other site 187303005290 GTP binding site [chemical binding]; other site 187303005291 Signal peptide binding domain; Region: SRP_SPB; pfam02978 187303005292 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 187303005293 DEAD-like helicases superfamily; Region: DEXDc; smart00487 187303005294 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 187303005295 ATP binding site [chemical binding]; other site 187303005296 ATP binding site [chemical binding]; other site 187303005297 putative Mg++ binding site [ion binding]; other site 187303005298 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 187303005299 nucleotide binding region [chemical binding]; other site 187303005300 ATP-binding site [chemical binding]; other site 187303005301 HRDC domain; Region: HRDC; cl02578 187303005302 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 187303005303 putative substrate translocation pore; other site 187303005304 aconitate hydratase; Validated; Region: PRK09277 187303005305 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 187303005306 substrate binding site [chemical binding]; other site 187303005307 ligand binding site [chemical binding]; other site 187303005308 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 187303005309 substrate binding site [chemical binding]; other site 187303005310 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 187303005311 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 187303005312 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 187303005313 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303005314 recombination factor protein RarA; Reviewed; Region: PRK13342 187303005315 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 187303005316 Walker A motif; other site 187303005317 ATP binding site [chemical binding]; other site 187303005318 Walker B motif; other site 187303005319 arginine finger; other site 187303005320 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 187303005321 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 187303005322 ParA-like protein; Provisional; Region: PHA02518 187303005323 P-loop; other site 187303005324 Magnesium ion binding site [ion binding]; other site 187303005325 transcription elongation factor regulatory protein; Validated; Region: PRK06342 187303005326 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 187303005327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 187303005328 SnoaL-like domain; Region: SnoaL_2; pfam12680 187303005329 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 187303005330 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 187303005331 NADP binding site [chemical binding]; other site 187303005332 dimer interface [polypeptide binding]; other site 187303005333 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 187303005334 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 187303005335 TIGR02300 family protein; Region: FYDLN_acid 187303005336 DEAD-like helicases superfamily; Region: DEXDc; smart00487 187303005337 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 187303005338 ATP binding site [chemical binding]; other site 187303005339 putative Mg++ binding site [ion binding]; other site 187303005340 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 187303005341 nucleotide binding region [chemical binding]; other site 187303005342 ATP-binding site [chemical binding]; other site 187303005343 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 187303005344 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 187303005345 Substrate binding site; other site 187303005346 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 187303005347 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 187303005348 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 187303005349 active site 187303005350 Fic family protein [Function unknown]; Region: COG3177 187303005351 Fic/DOC family; Region: Fic; pfam02661 187303005352 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 187303005353 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 187303005354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303005355 catalytic residue [active] 187303005356 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 187303005357 Acyltransferase family; Region: Acyl_transf_3; pfam01757 187303005358 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303005359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303005360 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 187303005361 methionine sulfoxide reductase A; Provisional; Region: PRK00058 187303005362 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 187303005363 hypothetical protein; Provisional; Region: PRK05409 187303005364 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 187303005365 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 187303005366 putative substrate translocation pore; other site 187303005367 Cupin domain; Region: Cupin_2; cl17218 187303005368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005369 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 187303005370 NAD(P) binding site [chemical binding]; other site 187303005371 active site 187303005372 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 187303005373 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 187303005374 nucleophile elbow; other site 187303005375 Patatin phospholipase; Region: DUF3734; pfam12536 187303005376 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 187303005377 putative catalytic residues [active] 187303005378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187303005379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303005380 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 187303005381 dimerization interface [polypeptide binding]; other site 187303005382 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 187303005383 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 187303005384 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 187303005385 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303005386 active site 187303005387 HIGH motif; other site 187303005388 nucleotide binding site [chemical binding]; other site 187303005389 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 187303005390 active site 187303005391 KMSKS motif; other site 187303005392 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 187303005393 tRNA binding surface [nucleotide binding]; other site 187303005394 anticodon binding site; other site 187303005395 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 187303005396 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 187303005397 active site 187303005398 Riboflavin kinase; Region: Flavokinase; pfam01687 187303005399 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 187303005400 dimer interaction site [polypeptide binding]; other site 187303005401 substrate-binding tunnel; other site 187303005402 active site 187303005403 catalytic site [active] 187303005404 substrate binding site [chemical binding]; other site 187303005405 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 187303005406 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 187303005407 active site 187303005408 motif I; other site 187303005409 motif II; other site 187303005410 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 187303005411 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 187303005412 active site clefts [active] 187303005413 zinc binding site [ion binding]; other site 187303005414 dimer interface [polypeptide binding]; other site 187303005415 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 187303005416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 187303005417 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 187303005418 HemY protein N-terminus; Region: HemY_N; pfam07219 187303005419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 187303005420 Smr domain; Region: Smr; pfam01713 187303005421 MltA specific insert domain; Region: MltA; smart00925 187303005422 3D domain; Region: 3D; pfam06725 187303005423 Tim44-like domain; Region: Tim44; pfam04280 187303005424 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 187303005425 preprotein translocase subunit SecB; Validated; Region: PRK05751 187303005426 SecA binding site; other site 187303005427 Preprotein binding site; other site 187303005428 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 187303005429 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 187303005430 active site 187303005431 catalytic site [active] 187303005432 substrate binding site [chemical binding]; other site 187303005433 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 187303005434 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 187303005435 CoA-binding site [chemical binding]; other site 187303005436 ATP-binding [chemical binding]; other site 187303005437 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 187303005438 active site 187303005439 dimer interface [polypeptide binding]; other site 187303005440 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 187303005441 substrate binding site [chemical binding]; other site 187303005442 active site 187303005443 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 187303005444 transcription termination factor Rho; Provisional; Region: rho; PRK09376 187303005445 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 187303005446 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 187303005447 RNA binding site [nucleotide binding]; other site 187303005448 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 187303005449 multimer interface [polypeptide binding]; other site 187303005450 Walker A motif; other site 187303005451 ATP binding site [chemical binding]; other site 187303005452 Walker B motif; other site 187303005453 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 187303005454 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 187303005455 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 187303005456 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 187303005457 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 187303005458 trmE is a tRNA modification GTPase; Region: trmE; cd04164 187303005459 G1 box; other site 187303005460 GTP/Mg2+ binding site [chemical binding]; other site 187303005461 Switch I region; other site 187303005462 G2 box; other site 187303005463 Switch II region; other site 187303005464 G3 box; other site 187303005465 G4 box; other site 187303005466 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 187303005467 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 187303005468 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 187303005469 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 187303005470 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 187303005471 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 187303005472 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 187303005473 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 187303005474 P-loop; other site 187303005475 Magnesium ion binding site [ion binding]; other site 187303005476 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 187303005477 Magnesium ion binding site [ion binding]; other site 187303005478 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 187303005479 ParB-like nuclease domain; Region: ParBc; pfam02195 187303005480 KorB domain; Region: KorB; pfam08535 187303005481 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303005482 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 187303005483 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 187303005484 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 187303005485 dimerization interface [polypeptide binding]; other site 187303005486 ATP binding site [chemical binding]; other site 187303005487 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 187303005488 dimerization interface [polypeptide binding]; other site 187303005489 ATP binding site [chemical binding]; other site 187303005490 BolA-like protein; Region: BolA; pfam01722 187303005491 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 187303005492 putative GSH binding site [chemical binding]; other site 187303005493 catalytic residues [active] 187303005494 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 187303005495 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 187303005496 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 187303005497 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 187303005498 S-adenosylmethionine binding site [chemical binding]; other site 187303005499 Uncharacterized conserved protein [Function unknown]; Region: COG3189 187303005500 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 187303005501 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 187303005502 catalytic site [active] 187303005503 G-X2-G-X-G-K; other site 187303005504 hypothetical protein; Provisional; Region: PRK11820 187303005505 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 187303005506 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 187303005507 YceG-like family; Region: YceG; pfam02618 187303005508 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 187303005509 dimerization interface [polypeptide binding]; other site 187303005510 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 187303005511 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 187303005512 dimer interface [polypeptide binding]; other site 187303005513 active site 187303005514 acyl carrier protein; Provisional; Region: acpP; PRK00982 187303005515 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 187303005516 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 187303005517 NAD(P) binding site [chemical binding]; other site 187303005518 homotetramer interface [polypeptide binding]; other site 187303005519 homodimer interface [polypeptide binding]; other site 187303005520 active site 187303005521 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303005522 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 187303005523 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 187303005524 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 187303005525 nucleoside/Zn binding site; other site 187303005526 dimer interface [polypeptide binding]; other site 187303005527 catalytic motif [active] 187303005528 SOUL heme-binding protein; Region: SOUL; pfam04832 187303005529 DNA-sulfur modification-associated; Region: DndB; cl17621 187303005530 acetyl-CoA synthetase; Provisional; Region: PRK00174 187303005531 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 187303005532 active site 187303005533 CoA binding site [chemical binding]; other site 187303005534 acyl-activating enzyme (AAE) consensus motif; other site 187303005535 AMP binding site [chemical binding]; other site 187303005536 acetate binding site [chemical binding]; other site 187303005537 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 187303005538 ligand binding site [chemical binding]; other site 187303005539 flexible hinge region; other site 187303005540 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 187303005541 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 187303005542 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 187303005543 substrate binding site [chemical binding]; other site 187303005544 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 187303005545 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 187303005546 Walker A/P-loop; other site 187303005547 ATP binding site [chemical binding]; other site 187303005548 Q-loop/lid; other site 187303005549 ABC transporter signature motif; other site 187303005550 Walker B; other site 187303005551 D-loop; other site 187303005552 H-loop/switch region; other site 187303005553 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 187303005554 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 187303005555 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 187303005556 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 187303005557 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 187303005558 30S subunit binding site; other site 187303005559 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 187303005560 active site 187303005561 phosphorylation site [posttranslational modification] 187303005562 General stress protein [General function prediction only]; Region: GsiB; COG3729 187303005563 two-component response regulator; Provisional; Region: PRK09191 187303005564 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 187303005565 active site 187303005566 phosphorylation site [posttranslational modification] 187303005567 intermolecular recognition site; other site 187303005568 dimerization interface [polypeptide binding]; other site 187303005569 RNA polymerase sigma factor; Provisional; Region: PRK12547 187303005570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303005571 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 187303005572 DNA binding residues [nucleotide binding] 187303005573 fumarate hydratase; Reviewed; Region: fumC; PRK00485 187303005574 Class II fumarases; Region: Fumarase_classII; cd01362 187303005575 active site 187303005576 tetramer interface [polypeptide binding]; other site 187303005577 hypothetical protein; Validated; Region: PRK09104 187303005578 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 187303005579 metal binding site [ion binding]; metal-binding site 187303005580 putative dimer interface [polypeptide binding]; other site 187303005581 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187303005582 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 187303005583 N-terminal plug; other site 187303005584 ligand-binding site [chemical binding]; other site 187303005585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303005586 Histidine kinase; Region: HisKA_2; pfam07568 187303005587 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 187303005588 ATP binding site [chemical binding]; other site 187303005589 Mg2+ binding site [ion binding]; other site 187303005590 G-X-G motif; other site 187303005591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 187303005592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303005593 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 187303005594 substrate binding pocket [chemical binding]; other site 187303005595 dimerization interface [polypeptide binding]; other site 187303005596 Protein of unknown function (DUF938); Region: DUF938; pfam06080 187303005597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005598 NAD(P) binding site [chemical binding]; other site 187303005599 active site 187303005600 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 187303005601 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 187303005602 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 187303005603 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 187303005604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303005605 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303005606 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 187303005607 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 187303005608 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 187303005609 substrate-cofactor binding pocket; other site 187303005610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303005611 catalytic residue [active] 187303005612 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 187303005613 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 187303005614 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 187303005615 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 187303005616 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 187303005617 Malic enzyme, N-terminal domain; Region: malic; pfam00390 187303005618 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 187303005619 putative NAD(P) binding site [chemical binding]; other site 187303005620 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 187303005621 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 187303005622 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 187303005623 MutS domain I; Region: MutS_I; pfam01624 187303005624 MutS domain II; Region: MutS_II; pfam05188 187303005625 MutS domain III; Region: MutS_III; pfam05192 187303005626 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 187303005627 Walker A/P-loop; other site 187303005628 ATP binding site [chemical binding]; other site 187303005629 Q-loop/lid; other site 187303005630 ABC transporter signature motif; other site 187303005631 Walker B; other site 187303005632 D-loop; other site 187303005633 H-loop/switch region; other site 187303005634 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 187303005635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 187303005636 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 187303005637 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 187303005638 RNA binding surface [nucleotide binding]; other site 187303005639 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 187303005640 active site 187303005641 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 187303005642 nucleoside/Zn binding site; other site 187303005643 dimer interface [polypeptide binding]; other site 187303005644 catalytic motif [active] 187303005645 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 187303005646 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 187303005647 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 187303005648 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 187303005649 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 187303005650 active site clefts [active] 187303005651 zinc binding site [ion binding]; other site 187303005652 dimer interface [polypeptide binding]; other site 187303005653 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 187303005654 active site residue [active] 187303005655 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 187303005656 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 187303005657 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303005658 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303005659 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 187303005660 dimerization interface [polypeptide binding]; other site 187303005661 putative DNA binding site [nucleotide binding]; other site 187303005662 putative Zn2+ binding site [ion binding]; other site 187303005663 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 187303005664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303005665 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 187303005666 ligand binding site [chemical binding]; other site 187303005667 flexible hinge region; other site 187303005668 non-specific DNA interactions [nucleotide binding]; other site 187303005669 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 187303005670 DNA binding site [nucleotide binding] 187303005671 sequence specific DNA binding site [nucleotide binding]; other site 187303005672 putative cAMP binding site [chemical binding]; other site 187303005673 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 187303005674 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 187303005675 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 187303005676 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 187303005677 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 187303005678 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 187303005679 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 187303005680 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 187303005681 metal-binding site [ion binding] 187303005682 Family description; Region: DsbD_2; pfam13386 187303005683 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 187303005684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 187303005685 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 187303005686 putative catalytic site [active] 187303005687 putative phosphate binding site [ion binding]; other site 187303005688 active site 187303005689 metal binding site A [ion binding]; metal-binding site 187303005690 DNA binding site [nucleotide binding] 187303005691 putative AP binding site [nucleotide binding]; other site 187303005692 putative metal binding site B [ion binding]; other site 187303005693 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 187303005694 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 187303005695 Sel1-like repeats; Region: SEL1; smart00671 187303005696 Sel1-like repeats; Region: SEL1; smart00671 187303005697 Cytochrome c; Region: Cytochrom_C; cl11414 187303005698 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 187303005699 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 187303005700 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 187303005701 active site 187303005702 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 187303005703 Coenzyme A transferase; Region: CoA_trans; smart00882 187303005704 Coenzyme A transferase; Region: CoA_trans; cl17247 187303005705 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 187303005706 dimerization interface [polypeptide binding]; other site 187303005707 putative DNA binding site [nucleotide binding]; other site 187303005708 putative Zn2+ binding site [ion binding]; other site 187303005709 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 187303005710 S-adenosylmethionine binding site [chemical binding]; other site 187303005711 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 187303005712 FAD binding site [chemical binding]; other site 187303005713 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 187303005714 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 187303005715 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 187303005716 substrate binding pocket [chemical binding]; other site 187303005717 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 187303005718 B12 binding site [chemical binding]; other site 187303005719 cobalt ligand [ion binding]; other site 187303005720 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 187303005721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303005722 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303005723 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303005724 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 187303005725 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 187303005726 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 187303005727 Multicopper oxidase; Region: Cu-oxidase; pfam00394 187303005728 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 187303005729 benzoate transport; Region: 2A0115; TIGR00895 187303005730 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 187303005731 putative substrate translocation pore; other site 187303005732 carbon starvation protein A; Provisional; Region: PRK15015 187303005733 Carbon starvation protein CstA; Region: CstA; pfam02554 187303005734 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 187303005735 Protein of unknown function (DUF466); Region: DUF466; cl01082 187303005736 PAS fold; Region: PAS_4; pfam08448 187303005737 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303005738 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 187303005739 putative active site [active] 187303005740 heme pocket [chemical binding]; other site 187303005741 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 187303005742 phosphorylation site [posttranslational modification] 187303005743 dimer interface [polypeptide binding]; other site 187303005744 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 187303005745 ATP binding site [chemical binding]; other site 187303005746 G-X-G motif; other site 187303005747 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 187303005748 Response regulator receiver domain; Region: Response_reg; pfam00072 187303005749 active site 187303005750 phosphorylation site [posttranslational modification] 187303005751 intermolecular recognition site; other site 187303005752 dimerization interface [polypeptide binding]; other site 187303005753 Response regulator receiver domain; Region: Response_reg; pfam00072 187303005754 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 187303005755 active site 187303005756 phosphorylation site [posttranslational modification] 187303005757 intermolecular recognition site; other site 187303005758 dimerization interface [polypeptide binding]; other site 187303005759 cyclase homology domain; Region: CHD; cd07302 187303005760 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 187303005761 nucleotidyl binding site; other site 187303005762 metal binding site [ion binding]; metal-binding site 187303005763 dimer interface [polypeptide binding]; other site 187303005764 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 187303005765 Fe-S cluster binding site [ion binding]; other site 187303005766 active site 187303005767 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 187303005768 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 187303005769 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 187303005770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 187303005771 short chain dehydrogenase; Provisional; Region: PRK06914 187303005772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303005773 NAD(P) binding site [chemical binding]; other site 187303005774 active site 187303005775 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 187303005776 thiamine phosphate binding site [chemical binding]; other site 187303005777 active site 187303005778 pyrophosphate binding site [ion binding]; other site 187303005779 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 187303005780 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 187303005781 amidase catalytic site [active] 187303005782 Zn binding residues [ion binding]; other site 187303005783 substrate binding site [chemical binding]; other site 187303005784 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303005785 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 187303005786 ThiS interaction site; other site 187303005787 putative active site [active] 187303005788 tetramer interface [polypeptide binding]; other site 187303005789 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 187303005790 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 187303005791 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 187303005792 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 187303005793 putative C-terminal domain interface [polypeptide binding]; other site 187303005794 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303005795 putative dimer interface [polypeptide binding]; other site 187303005796 putative GSH binding site (G-site) [chemical binding]; other site 187303005797 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 187303005798 dimer interface [polypeptide binding]; other site 187303005799 N-terminal domain interface [polypeptide binding]; other site 187303005800 putative substrate binding pocket (H-site) [chemical binding]; other site 187303005801 Cell division protein ZapA; Region: ZapA; pfam05164 187303005802 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 187303005803 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 187303005804 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 187303005805 Phosphoglycerate kinase; Region: PGK; pfam00162 187303005806 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 187303005807 substrate binding site [chemical binding]; other site 187303005808 hinge regions; other site 187303005809 ADP binding site [chemical binding]; other site 187303005810 catalytic site [active] 187303005811 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 187303005812 catalytic triad [active] 187303005813 dimer interface [polypeptide binding]; other site 187303005814 Domain of unknown function (DUF336); Region: DUF336; pfam03928 187303005815 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 187303005816 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303005817 catalytic residues [active] 187303005818 argininosuccinate lyase; Provisional; Region: PRK00855 187303005819 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 187303005820 active sites [active] 187303005821 tetramer interface [polypeptide binding]; other site 187303005822 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 187303005823 active site 187303005824 thiamine phosphate binding site [chemical binding]; other site 187303005825 pyrophosphate binding site [ion binding]; other site 187303005826 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 187303005827 Sel1-like repeats; Region: SEL1; smart00671 187303005828 Sel1-like repeats; Region: SEL1; smart00671 187303005829 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 187303005830 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 187303005831 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 187303005832 flavodoxin FldA; Validated; Region: PRK09267 187303005833 Peptidase family M48; Region: Peptidase_M48; cl12018 187303005834 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 187303005835 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 187303005836 active site 187303005837 catalytic residues [active] 187303005838 metal binding site [ion binding]; metal-binding site 187303005839 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 187303005840 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 187303005841 putative active site [active] 187303005842 substrate binding site [chemical binding]; other site 187303005843 putative cosubstrate binding site; other site 187303005844 catalytic site [active] 187303005845 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 187303005846 substrate binding site [chemical binding]; other site 187303005847 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 187303005848 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 187303005849 dimerization interface 3.5A [polypeptide binding]; other site 187303005850 active site 187303005851 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 187303005852 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 187303005853 Moco binding site; other site 187303005854 metal coordination site [ion binding]; other site 187303005855 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 187303005856 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303005857 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 187303005858 putative NAD(P) binding site [chemical binding]; other site 187303005859 active site 187303005860 putative substrate binding site [chemical binding]; other site 187303005861 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 187303005862 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 187303005863 diaminopimelate decarboxylase; Region: lysA; TIGR01048 187303005864 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 187303005865 active site 187303005866 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 187303005867 substrate binding site [chemical binding]; other site 187303005868 catalytic residues [active] 187303005869 dimer interface [polypeptide binding]; other site 187303005870 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303005871 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 187303005872 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 187303005873 TPP-binding site; other site 187303005874 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 187303005875 PYR/PP interface [polypeptide binding]; other site 187303005876 dimer interface [polypeptide binding]; other site 187303005877 TPP binding site [chemical binding]; other site 187303005878 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187303005879 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303005880 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 187303005881 putative active site [active] 187303005882 GIY-YIG motif/motif A; other site 187303005883 putative metal binding site [ion binding]; other site 187303005884 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 187303005885 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 187303005886 dimer interface [polypeptide binding]; other site 187303005887 motif 1; other site 187303005888 motif 2; other site 187303005889 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 187303005890 anticodon binding site; other site 187303005891 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 187303005892 Ligand Binding Site [chemical binding]; other site 187303005893 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 187303005894 Ligand Binding Site [chemical binding]; other site 187303005895 META domain; Region: META; pfam03724 187303005896 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 187303005897 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 187303005898 dimerization interface [polypeptide binding]; other site 187303005899 ligand binding site [chemical binding]; other site 187303005900 NADP binding site [chemical binding]; other site 187303005901 catalytic site [active] 187303005902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 187303005903 Bacterial SH3 domain; Region: SH3_4; pfam06347 187303005904 Bacterial SH3 domain; Region: SH3_4; pfam06347 187303005905 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303005906 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 187303005907 active site 187303005908 phosphorylation site [posttranslational modification] 187303005909 dimerization interface [polypeptide binding]; other site 187303005910 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 187303005911 PAS domain; Region: PAS_9; pfam13426 187303005912 putative active site [active] 187303005913 heme pocket [chemical binding]; other site 187303005914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303005915 HWE histidine kinase; Region: HWE_HK; pfam07536 187303005916 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 187303005917 metal binding site 2 [ion binding]; metal-binding site 187303005918 putative DNA binding helix; other site 187303005919 metal binding site 1 [ion binding]; metal-binding site 187303005920 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 187303005921 active site 1 [active] 187303005922 dimer interface [polypeptide binding]; other site 187303005923 active site 2 [active] 187303005924 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 187303005925 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 187303005926 dimer interface [polypeptide binding]; other site 187303005927 active site 187303005928 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 187303005929 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 187303005930 NAD binding site [chemical binding]; other site 187303005931 homotetramer interface [polypeptide binding]; other site 187303005932 homodimer interface [polypeptide binding]; other site 187303005933 substrate binding site [chemical binding]; other site 187303005934 active site 187303005935 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 187303005936 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 187303005937 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 187303005938 dimerization interface [polypeptide binding]; other site 187303005939 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 187303005940 PhnA protein; Region: PhnA; pfam03831 187303005941 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 187303005942 PAS domain S-box; Region: sensory_box; TIGR00229 187303005943 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 187303005944 putative active site [active] 187303005945 heme pocket [chemical binding]; other site 187303005946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303005947 HWE histidine kinase; Region: HWE_HK; cl06527 187303005948 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 187303005949 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 187303005950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303005951 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 187303005952 DNA binding residues [nucleotide binding] 187303005953 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 187303005954 apolar tunnel; other site 187303005955 heme binding site [chemical binding]; other site 187303005956 dimerization interface [polypeptide binding]; other site 187303005957 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 187303005958 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 187303005959 catalytic loop [active] 187303005960 iron binding site [ion binding]; other site 187303005961 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 187303005962 FAD binding pocket [chemical binding]; other site 187303005963 FAD binding motif [chemical binding]; other site 187303005964 phosphate binding motif [ion binding]; other site 187303005965 beta-alpha-beta structure motif; other site 187303005966 NAD binding pocket [chemical binding]; other site 187303005967 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 187303005968 active site 187303005969 DNA polymerase IV; Validated; Region: PRK02406 187303005970 DNA binding site [nucleotide binding] 187303005971 HupF/HypC family; Region: HupF_HypC; pfam01455 187303005972 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 187303005973 putative substrate-binding site; other site 187303005974 nickel binding site [ion binding]; other site 187303005975 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 187303005976 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 187303005977 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 187303005978 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 187303005979 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 187303005980 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 187303005981 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 187303005982 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 187303005983 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 187303005984 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 187303005985 putative active site [active] 187303005986 heme pocket [chemical binding]; other site 187303005987 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 187303005988 dimer interface [polypeptide binding]; other site 187303005989 phosphorylation site [posttranslational modification] 187303005990 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 187303005991 ATP binding site [chemical binding]; other site 187303005992 Mg2+ binding site [ion binding]; other site 187303005993 G-X-G motif; other site 187303005994 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 187303005995 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 187303005996 active site 187303005997 phosphorylation site [posttranslational modification] 187303005998 intermolecular recognition site; other site 187303005999 dimerization interface [polypeptide binding]; other site 187303006000 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 187303006001 Walker A motif; other site 187303006002 ATP binding site [chemical binding]; other site 187303006003 Walker B motif; other site 187303006004 arginine finger; other site 187303006005 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 187303006006 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 187303006007 dimerization interface [polypeptide binding]; other site 187303006008 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 187303006009 ATP binding site [chemical binding]; other site 187303006010 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 187303006011 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 187303006012 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 187303006013 Acylphosphatase; Region: Acylphosphatase; pfam00708 187303006014 HypF finger; Region: zf-HYPF; pfam07503 187303006015 HypF finger; Region: zf-HYPF; pfam07503 187303006016 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 187303006017 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303006018 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 187303006019 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 187303006020 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 187303006021 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 187303006022 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 187303006023 Rubredoxin; Region: Rubredoxin; pfam00301 187303006024 iron binding site [ion binding]; other site 187303006025 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 187303006026 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 187303006027 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 187303006028 Uncharacterized conserved protein [Function unknown]; Region: COG5649 187303006029 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 187303006030 dimerization interface [polypeptide binding]; other site 187303006031 putative DNA binding site [nucleotide binding]; other site 187303006032 putative Zn2+ binding site [ion binding]; other site 187303006033 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 187303006034 putative hydrophobic ligand binding site [chemical binding]; other site 187303006035 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 187303006036 putative hydrophobic ligand binding site [chemical binding]; other site 187303006037 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 187303006038 putative hydrophobic ligand binding site [chemical binding]; other site 187303006039 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 187303006040 putative hydrophobic ligand binding site [chemical binding]; other site 187303006041 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 187303006042 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303006043 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 187303006044 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 187303006045 SnoaL-like domain; Region: SnoaL_2; pfam12680 187303006046 AAA ATPase domain; Region: AAA_16; pfam13191 187303006047 DNA polymerase III, delta subunit; Region: holA; TIGR01128 187303006048 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 187303006049 Bacterial sugar transferase; Region: Bac_transf; pfam02397 187303006050 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 187303006051 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 187303006052 active site 187303006053 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 187303006054 homodimer interface [polypeptide binding]; other site 187303006055 putative glycosyl transferase; Provisional; Region: PRK10307 187303006056 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 187303006057 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 187303006058 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 187303006059 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 187303006060 putative NAD(P) binding site [chemical binding]; other site 187303006061 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 187303006062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 187303006063 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 187303006064 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 187303006065 putative metal binding site; other site 187303006066 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303006067 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 187303006068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 187303006069 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 187303006070 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 187303006071 Methyltransferase domain; Region: Methyltransf_18; pfam12847 187303006072 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303006073 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 187303006074 S-adenosylmethionine binding site [chemical binding]; other site 187303006075 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 187303006076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303006077 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 187303006078 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 187303006079 S-adenosylmethionine binding site [chemical binding]; other site 187303006080 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 187303006081 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 187303006082 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 187303006083 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 187303006084 active site 187303006085 dimer interface [polypeptide binding]; other site 187303006086 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 187303006087 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 187303006088 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 187303006089 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 187303006090 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303006091 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 187303006092 putative NAD(P) binding site [chemical binding]; other site 187303006093 active site 187303006094 putative substrate binding site [chemical binding]; other site 187303006095 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 187303006096 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 187303006097 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 187303006098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303006099 active site 187303006100 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 187303006101 Chain length determinant protein; Region: Wzz; pfam02706 187303006102 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 187303006103 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 187303006104 P-loop; other site 187303006105 Magnesium ion binding site [ion binding]; other site 187303006106 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 187303006107 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 187303006108 SLBB domain; Region: SLBB; pfam10531 187303006109 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 187303006110 O-Antigen ligase; Region: Wzy_C; pfam04932 187303006111 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 187303006112 Predicted integral membrane protein [Function unknown]; Region: COG0392 187303006113 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 187303006114 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 187303006115 dimer interface [polypeptide binding]; other site 187303006116 phosphorylation site [posttranslational modification] 187303006117 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 187303006118 ATP binding site [chemical binding]; other site 187303006119 Mg2+ binding site [ion binding]; other site 187303006120 G-X-G motif; other site 187303006121 PBP superfamily domain; Region: PBP_like_2; cl17296 187303006122 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 187303006123 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 187303006124 dimer interface [polypeptide binding]; other site 187303006125 conserved gate region; other site 187303006126 putative PBP binding loops; other site 187303006127 ABC-ATPase subunit interface; other site 187303006128 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 187303006129 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 187303006130 dimer interface [polypeptide binding]; other site 187303006131 conserved gate region; other site 187303006132 putative PBP binding loops; other site 187303006133 ABC-ATPase subunit interface; other site 187303006134 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 187303006135 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 187303006136 Walker A/P-loop; other site 187303006137 ATP binding site [chemical binding]; other site 187303006138 Q-loop/lid; other site 187303006139 ABC transporter signature motif; other site 187303006140 Walker B; other site 187303006141 D-loop; other site 187303006142 H-loop/switch region; other site 187303006143 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 187303006144 PhoU domain; Region: PhoU; pfam01895 187303006145 PhoU domain; Region: PhoU; pfam01895 187303006146 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 187303006147 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 187303006148 active site 187303006149 phosphorylation site [posttranslational modification] 187303006150 intermolecular recognition site; other site 187303006151 dimerization interface [polypeptide binding]; other site 187303006152 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 187303006153 DNA binding site [nucleotide binding] 187303006154 GcrA cell cycle regulator; Region: GcrA; cl11564 187303006155 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 187303006156 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 187303006157 inhibitor-cofactor binding pocket; inhibition site 187303006158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303006159 catalytic residue [active] 187303006160 ornithine carbamoyltransferase; Provisional; Region: PRK00779 187303006161 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 187303006162 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 187303006163 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 187303006164 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 187303006165 dimerization interface [polypeptide binding]; other site 187303006166 domain crossover interface; other site 187303006167 redox-dependent activation switch; other site 187303006168 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 187303006169 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 187303006170 tyrosine decarboxylase; Region: PLN02880 187303006171 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 187303006172 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303006173 catalytic residue [active] 187303006174 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 187303006175 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 187303006176 Cl binding site [ion binding]; other site 187303006177 oligomer interface [polypeptide binding]; other site 187303006178 peptide chain release factor 2; Provisional; Region: PRK07342 187303006179 This domain is found in peptide chain release factors; Region: PCRF; smart00937 187303006180 RF-1 domain; Region: RF-1; pfam00472 187303006181 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 187303006182 oligomeric interface; other site 187303006183 putative active site [active] 187303006184 homodimer interface [polypeptide binding]; other site 187303006185 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 187303006186 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 187303006187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303006188 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 187303006189 DNA binding residues [nucleotide binding] 187303006190 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 187303006191 methionine sulfoxide reductase A; Provisional; Region: PRK13014 187303006192 methionine sulfoxide reductase B; Provisional; Region: PRK00222 187303006193 SelR domain; Region: SelR; pfam01641 187303006194 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 187303006195 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 187303006196 ATP binding site [chemical binding]; other site 187303006197 Mg2+ binding site [ion binding]; other site 187303006198 G-X-G motif; other site 187303006199 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 187303006200 ATP binding site [chemical binding]; other site 187303006201 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 187303006202 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 187303006203 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 187303006204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303006205 Walker A/P-loop; other site 187303006206 ATP binding site [chemical binding]; other site 187303006207 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 187303006208 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303006209 Walker B; other site 187303006210 D-loop; other site 187303006211 H-loop/switch region; other site 187303006212 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 187303006213 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 187303006214 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 187303006215 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 187303006216 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 187303006217 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 187303006218 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 187303006219 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 187303006220 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 187303006221 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303006222 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 187303006223 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cd00919 187303006224 D-pathway; other site 187303006225 Low-spin heme binding site [chemical binding]; other site 187303006226 Putative water exit pathway; other site 187303006227 Binuclear center (active site) [active] 187303006228 K-pathway; other site 187303006229 Putative proton exit pathway; other site 187303006230 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 187303006231 Subunit I/III interface [polypeptide binding]; other site 187303006232 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 187303006233 Subunit I/III interface [polypeptide binding]; other site 187303006234 Predicted small integral membrane protein [Function unknown]; Region: COG5605 187303006235 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 187303006236 putative substrate translocation pore; other site 187303006237 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 187303006238 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 187303006239 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 187303006240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303006241 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 187303006242 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 187303006243 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 187303006244 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303006245 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303006246 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 187303006247 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 187303006248 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 187303006249 active site 187303006250 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 187303006251 anti sigma factor interaction site; other site 187303006252 regulatory phosphorylation site [posttranslational modification]; other site 187303006253 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 187303006254 Permease; Region: Permease; pfam02405 187303006255 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 187303006256 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 187303006257 Walker A/P-loop; other site 187303006258 ATP binding site [chemical binding]; other site 187303006259 Q-loop/lid; other site 187303006260 ABC transporter signature motif; other site 187303006261 Walker B; other site 187303006262 D-loop; other site 187303006263 H-loop/switch region; other site 187303006264 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 187303006265 mce related protein; Region: MCE; pfam02470 187303006266 Protein of unknown function (DUF330); Region: DUF330; cl01135 187303006267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 187303006268 hypothetical protein; Provisional; Region: PRK08317 187303006269 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 187303006270 S-adenosylmethionine binding site [chemical binding]; other site 187303006271 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 187303006272 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 187303006273 catalytic loop [active] 187303006274 iron binding site [ion binding]; other site 187303006275 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 187303006276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303006277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303006278 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 187303006279 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 187303006280 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 187303006281 putative hydrophobic ligand binding site [chemical binding]; other site 187303006282 CysZ-like protein; Reviewed; Region: PRK12768 187303006283 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 187303006284 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 187303006285 putative NAD(P) binding site [chemical binding]; other site 187303006286 active site 187303006287 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 187303006288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303006289 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 187303006290 ATP binding site [chemical binding]; other site 187303006291 Mg2+ binding site [ion binding]; other site 187303006292 G-X-G motif; other site 187303006293 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 187303006294 N-terminal plug; other site 187303006295 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187303006296 ligand-binding site [chemical binding]; other site 187303006297 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 187303006298 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 187303006299 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 187303006300 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187303006301 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 187303006302 N-terminal plug; other site 187303006303 ligand-binding site [chemical binding]; other site 187303006304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303006305 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 187303006306 active site 187303006307 phosphorylation site [posttranslational modification] 187303006308 intermolecular recognition site; other site 187303006309 dimerization interface [polypeptide binding]; other site 187303006310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303006311 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 187303006312 dimer interface [polypeptide binding]; other site 187303006313 phosphorylation site [posttranslational modification] 187303006314 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 187303006315 ATP binding site [chemical binding]; other site 187303006316 Mg2+ binding site [ion binding]; other site 187303006317 G-X-G motif; other site 187303006318 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 187303006319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 187303006320 active site 187303006321 phosphorylation site [posttranslational modification] 187303006322 intermolecular recognition site; other site 187303006323 ANTAR domain; Region: ANTAR; pfam03861 187303006324 NMT1-like family; Region: NMT1_2; pfam13379 187303006325 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 187303006326 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 187303006327 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303006328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303006329 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 187303006330 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303006331 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303006332 sulfite reductase; Provisional; Region: PRK06214 187303006333 Putative Fe-S cluster; Region: FeS; cl17515 187303006334 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 187303006335 FAD binding pocket [chemical binding]; other site 187303006336 FAD binding motif [chemical binding]; other site 187303006337 catalytic residues [active] 187303006338 NAD binding pocket [chemical binding]; other site 187303006339 phosphate binding motif [ion binding]; other site 187303006340 beta-alpha-beta structure motif; other site 187303006341 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 187303006342 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 187303006343 [4Fe-4S] binding site [ion binding]; other site 187303006344 molybdopterin cofactor binding site; other site 187303006345 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 187303006346 molybdopterin cofactor binding site; other site 187303006347 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 187303006348 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 187303006349 active site 187303006350 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 187303006351 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 187303006352 Catalytic domain of Protein Kinases; Region: PKc; cd00180 187303006353 active site 187303006354 ATP binding site [chemical binding]; other site 187303006355 substrate binding site [chemical binding]; other site 187303006356 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 187303006357 substrate binding site [chemical binding]; other site 187303006358 activation loop (A-loop); other site 187303006359 activation loop (A-loop); other site 187303006360 DDE superfamily endonuclease; Region: DDE_3; pfam13358 187303006361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 187303006362 Transposase; Region: HTH_Tnp_IS630; pfam01710 187303006363 Uncharacterized conserved protein [Function unknown]; Region: COG3025 187303006364 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 187303006365 putative active site [active] 187303006366 putative metal binding residues [ion binding]; other site 187303006367 signature motif; other site 187303006368 putative triphosphate binding site [ion binding]; other site 187303006369 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 187303006370 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 187303006371 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 187303006372 Sulfatase; Region: Sulfatase; cl17466 187303006373 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 187303006374 diguanylate cyclase; Provisional; Region: PRK09894 187303006375 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 187303006376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187303006377 metal binding site [ion binding]; metal-binding site 187303006378 active site 187303006379 I-site; other site 187303006380 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303006381 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 187303006382 active site 187303006383 phosphorylation site [posttranslational modification] 187303006384 intermolecular recognition site; other site 187303006385 dimerization interface [polypeptide binding]; other site 187303006386 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 187303006387 DNA binding site [nucleotide binding] 187303006388 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 187303006389 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 187303006390 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 187303006391 Ligand Binding Site [chemical binding]; other site 187303006392 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 187303006393 GAF domain; Region: GAF_3; pfam13492 187303006394 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 187303006395 dimer interface [polypeptide binding]; other site 187303006396 phosphorylation site [posttranslational modification] 187303006397 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 187303006398 ATP binding site [chemical binding]; other site 187303006399 Mg2+ binding site [ion binding]; other site 187303006400 G-X-G motif; other site 187303006401 K+-transporting ATPase, c chain; Region: KdpC; cl00944 187303006402 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 187303006403 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303006404 Soluble P-type ATPase [General function prediction only]; Region: COG4087 187303006405 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 187303006406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303006407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303006408 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 187303006409 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 187303006410 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303006411 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303006412 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303006413 multidrug efflux protein; Reviewed; Region: PRK09579 187303006414 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 187303006415 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 187303006416 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 187303006417 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 187303006418 putative active site [active] 187303006419 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 187303006420 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 187303006421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303006422 Walker A/P-loop; other site 187303006423 ATP binding site [chemical binding]; other site 187303006424 Q-loop/lid; other site 187303006425 ABC transporter signature motif; other site 187303006426 Walker B; other site 187303006427 D-loop; other site 187303006428 H-loop/switch region; other site 187303006429 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 187303006430 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303006431 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 187303006432 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 187303006433 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 187303006434 Active Sites [active] 187303006435 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 187303006436 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 187303006437 CysD dimerization site [polypeptide binding]; other site 187303006438 G1 box; other site 187303006439 putative GEF interaction site [polypeptide binding]; other site 187303006440 GTP/Mg2+ binding site [chemical binding]; other site 187303006441 Switch I region; other site 187303006442 G2 box; other site 187303006443 G3 box; other site 187303006444 Switch II region; other site 187303006445 G4 box; other site 187303006446 G5 box; other site 187303006447 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 187303006448 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 187303006449 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 187303006450 ligand-binding site [chemical binding]; other site 187303006451 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 187303006452 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 187303006453 NADP binding site [chemical binding]; other site 187303006454 active site 187303006455 putative substrate binding site [chemical binding]; other site 187303006456 ribosome maturation protein RimP; Reviewed; Region: PRK00092 187303006457 Sm and related proteins; Region: Sm_like; cl00259 187303006458 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 187303006459 putative oligomer interface [polypeptide binding]; other site 187303006460 putative RNA binding site [nucleotide binding]; other site 187303006461 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 187303006462 NusA N-terminal domain; Region: NusA_N; pfam08529 187303006463 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 187303006464 RNA binding site [nucleotide binding]; other site 187303006465 homodimer interface [polypeptide binding]; other site 187303006466 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 187303006467 G-X-X-G motif; other site 187303006468 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 187303006469 G-X-X-G motif; other site 187303006470 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 187303006471 hypothetical protein; Provisional; Region: PRK09190 187303006472 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 187303006473 putative RNA binding cleft [nucleotide binding]; other site 187303006474 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 187303006475 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 187303006476 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 187303006477 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 187303006478 G1 box; other site 187303006479 putative GEF interaction site [polypeptide binding]; other site 187303006480 GTP/Mg2+ binding site [chemical binding]; other site 187303006481 Switch I region; other site 187303006482 G2 box; other site 187303006483 G3 box; other site 187303006484 Switch II region; other site 187303006485 G4 box; other site 187303006486 G5 box; other site 187303006487 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 187303006488 Translation-initiation factor 2; Region: IF-2; pfam11987 187303006489 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 187303006490 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 187303006491 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 187303006492 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 187303006493 RNA binding site [nucleotide binding]; other site 187303006494 active site 187303006495 glutamate racemase; Provisional; Region: PRK00865 187303006496 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 187303006497 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 187303006498 GTP cyclohydrolase I; Provisional; Region: PLN03044 187303006499 active site 187303006500 tartrate dehydrogenase; Region: TTC; TIGR02089 187303006501 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 187303006502 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 187303006503 CTP synthetase; Validated; Region: pyrG; PRK05380 187303006504 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 187303006505 Catalytic site [active] 187303006506 active site 187303006507 UTP binding site [chemical binding]; other site 187303006508 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 187303006509 active site 187303006510 putative oxyanion hole; other site 187303006511 catalytic triad [active] 187303006512 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 187303006513 GIY-YIG motif/motif A; other site 187303006514 putative active site [active] 187303006515 putative metal binding site [ion binding]; other site 187303006516 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 187303006517 PemK-like protein; Region: PemK; cl00995 187303006518 Uncharacterized conserved protein [Function unknown]; Region: COG2128 187303006519 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 187303006520 Protein required for attachment to host cells; Region: Host_attach; pfam10116 187303006521 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 187303006522 Membrane-associated tegument protein; Region: UL11; cl17374 187303006523 TspO/MBR family; Region: TspO_MBR; pfam03073 187303006524 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 187303006525 Fe-S cluster binding site [ion binding]; other site 187303006526 active site 187303006527 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 187303006528 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303006529 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 187303006530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303006531 active site 187303006532 nucleotide binding site [chemical binding]; other site 187303006533 HIGH motif; other site 187303006534 KMSKS motif; other site 187303006535 Uncharacterized conserved protein (DUF2305); Region: DUF2305; pfam10230 187303006536 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 187303006537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 187303006538 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 187303006539 Walker A/P-loop; other site 187303006540 ATP binding site [chemical binding]; other site 187303006541 Q-loop/lid; other site 187303006542 ABC transporter signature motif; other site 187303006543 Walker B; other site 187303006544 D-loop; other site 187303006545 H-loop/switch region; other site 187303006546 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 187303006547 FtsX-like permease family; Region: FtsX; pfam02687 187303006548 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 187303006549 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 187303006550 active site 187303006551 dimer interface [polypeptide binding]; other site 187303006552 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 187303006553 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 187303006554 dimer interface [polypeptide binding]; other site 187303006555 active site 187303006556 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 187303006557 dimer interface [polypeptide binding]; other site 187303006558 active site 187303006559 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 187303006560 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 187303006561 putative active site [active] 187303006562 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 187303006563 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 187303006564 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 187303006565 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 187303006566 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 187303006567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303006568 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 187303006569 phosphoribulokinase; Provisional; Region: PRK15453 187303006570 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 187303006571 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 187303006572 TPP-binding site [chemical binding]; other site 187303006573 dimer interface [polypeptide binding]; other site 187303006574 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 187303006575 PYR/PP interface [polypeptide binding]; other site 187303006576 dimer interface [polypeptide binding]; other site 187303006577 TPP binding site [chemical binding]; other site 187303006578 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 187303006579 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 187303006580 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 187303006581 intersubunit interface [polypeptide binding]; other site 187303006582 active site 187303006583 zinc binding site [ion binding]; other site 187303006584 Na+ binding site [ion binding]; other site 187303006585 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 187303006586 S-adenosylmethionine binding site [chemical binding]; other site 187303006587 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303006588 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 187303006589 S-adenosylmethionine binding site [chemical binding]; other site 187303006590 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 187303006591 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 187303006592 substrate binding site [chemical binding]; other site 187303006593 hexamer interface [polypeptide binding]; other site 187303006594 metal binding site [ion binding]; metal-binding site 187303006595 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 187303006596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303006597 PAS fold; Region: PAS_3; pfam08447 187303006598 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 187303006599 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 187303006600 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303006601 active site 187303006602 phosphorylation site [posttranslational modification] 187303006603 intermolecular recognition site; other site 187303006604 dimerization interface [polypeptide binding]; other site 187303006605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303006606 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303006607 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 187303006608 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 187303006609 FMN binding site [chemical binding]; other site 187303006610 active site 187303006611 substrate binding site [chemical binding]; other site 187303006612 catalytic residue [active] 187303006613 Domain of unknown function DUF302; Region: DUF302; pfam03625 187303006614 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 187303006615 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187303006616 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187303006617 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 187303006618 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 187303006619 Cytochrome c; Region: Cytochrom_C; pfam00034 187303006620 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303006621 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 187303006622 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 187303006623 Trp docking motif [polypeptide binding]; other site 187303006624 dimer interface [polypeptide binding]; other site 187303006625 active site 187303006626 small subunit binding site [polypeptide binding]; other site 187303006627 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 187303006628 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 187303006629 substrate binding pocket [chemical binding]; other site 187303006630 membrane-bound complex binding site; other site 187303006631 hinge residues; other site 187303006632 cytochrome c(L), periplasmic; Region: cytochrome_MoxG; TIGR03872 187303006633 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 187303006634 MoxR-like ATPases [General function prediction only]; Region: COG0714 187303006635 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 187303006636 Walker A motif; other site 187303006637 ATP binding site [chemical binding]; other site 187303006638 Walker B motif; other site 187303006639 arginine finger; other site 187303006640 Protein of unknown function DUF58; Region: DUF58; pfam01882 187303006641 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 187303006642 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 187303006643 metal ion-dependent adhesion site (MIDAS); other site 187303006644 von Willebrand factor type A domain; Region: VWA_2; pfam13519 187303006645 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 187303006646 putative hydrophobic ligand binding site [chemical binding]; other site 187303006647 protein interface [polypeptide binding]; other site 187303006648 gate; other site 187303006649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303006650 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 187303006651 active site 187303006652 phosphorylation site [posttranslational modification] 187303006653 intermolecular recognition site; other site 187303006654 dimerization interface [polypeptide binding]; other site 187303006655 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 187303006656 DNA binding residues [nucleotide binding] 187303006657 dimerization interface [polypeptide binding]; other site 187303006658 Histidine kinase; Region: HisKA_3; pfam07730 187303006659 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 187303006660 ATP binding site [chemical binding]; other site 187303006661 Mg2+ binding site [ion binding]; other site 187303006662 G-X-G motif; other site 187303006663 Usg-like family; Region: Usg; pfam06233 187303006664 Nif-specific regulatory protein; Region: nifA; TIGR01817 187303006665 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 187303006666 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 187303006667 Walker A motif; other site 187303006668 ATP binding site [chemical binding]; other site 187303006669 Walker B motif; other site 187303006670 arginine finger; other site 187303006671 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 187303006672 molybdenum-pterin binding domain; Region: Mop; TIGR00638 187303006673 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 187303006674 heme-binding site [chemical binding]; other site 187303006675 Response regulator receiver domain; Region: Response_reg; pfam00072 187303006676 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 187303006677 active site 187303006678 phosphorylation site [posttranslational modification] 187303006679 intermolecular recognition site; other site 187303006680 dimerization interface [polypeptide binding]; other site 187303006681 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 187303006682 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 187303006683 N-terminal plug; other site 187303006684 ligand-binding site [chemical binding]; other site 187303006685 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 187303006686 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 187303006687 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 187303006688 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 187303006689 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 187303006690 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 187303006691 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 187303006692 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 187303006693 CsbD-like; Region: CsbD; cl17424 187303006694 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 187303006695 HSP70 interaction site [polypeptide binding]; other site 187303006696 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 187303006697 putative hydrophobic ligand binding site [chemical binding]; other site 187303006698 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 187303006699 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303006700 catalytic residue [active] 187303006701 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 187303006702 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 187303006703 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 187303006704 catalytic loop [active] 187303006705 iron binding site [ion binding]; other site 187303006706 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 187303006707 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 187303006708 motif II; other site 187303006709 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303006710 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 187303006711 S-adenosylmethionine binding site [chemical binding]; other site 187303006712 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 187303006713 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 187303006714 catalytic residues [active] 187303006715 Nif-specific regulatory protein; Region: nifA; TIGR01817 187303006716 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 187303006717 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 187303006718 Walker A motif; other site 187303006719 ATP binding site [chemical binding]; other site 187303006720 Walker B motif; other site 187303006721 arginine finger; other site 187303006722 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 187303006723 hypothetical protein; Provisional; Region: PRK13795 187303006724 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 187303006725 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 187303006726 putative ABC transporter; Region: ycf24; CHL00085 187303006727 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 187303006728 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 187303006729 Walker A/P-loop; other site 187303006730 ATP binding site [chemical binding]; other site 187303006731 Q-loop/lid; other site 187303006732 ABC transporter signature motif; other site 187303006733 Walker B; other site 187303006734 D-loop; other site 187303006735 H-loop/switch region; other site 187303006736 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 187303006737 FeS assembly protein SufD; Region: sufD; TIGR01981 187303006738 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 187303006739 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 187303006740 FeS/SAM binding site; other site 187303006741 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 187303006742 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 187303006743 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 187303006744 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 187303006745 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 187303006746 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 187303006747 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 187303006748 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 187303006749 Nucleotide-binding sites [chemical binding]; other site 187303006750 Walker A motif; other site 187303006751 Switch I region of nucleotide binding site; other site 187303006752 Fe4S4 binding sites [ion binding]; other site 187303006753 Switch II region of nucleotide binding site; other site 187303006754 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 187303006755 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 187303006756 MoFe protein alpha/beta subunit interactions; other site 187303006757 Alpha subunit P cluster binding residues; other site 187303006758 FeMoco binding residues [chemical binding]; other site 187303006759 MoFe protein alpha subunit/Fe protein contacts; other site 187303006760 MoFe protein dimer/ dimer interactions; other site 187303006761 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 187303006762 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 187303006763 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 187303006764 MoFe protein beta/alpha subunit interactions; other site 187303006765 Beta subunit P cluster binding residues; other site 187303006766 MoFe protein beta subunit/Fe protein contacts; other site 187303006767 MoFe protein dimer/ dimer interactions; other site 187303006768 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 187303006769 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 187303006770 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 187303006771 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 187303006772 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 187303006773 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 187303006774 probable nitrogen fixation protein; Region: TIGR02935 187303006775 Rop-like; Region: Rop-like; pfam05082 187303006776 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 187303006777 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 187303006778 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 187303006779 active site residue [active] 187303006780 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 187303006781 active site residue [active] 187303006782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 187303006783 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 187303006784 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 187303006785 iron-sulfur cluster [ion binding]; other site 187303006786 [2Fe-2S] cluster binding site [ion binding]; other site 187303006787 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 187303006788 NifU-like domain; Region: NifU; pfam01106 187303006789 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 187303006790 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 187303006791 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303006792 catalytic residue [active] 187303006793 NifT/FixU protein; Region: NifT; pfam06988 187303006794 SIR2-like domain; Region: SIR2_2; pfam13289 187303006795 NifZ domain; Region: NifZ; pfam04319 187303006796 NifZ domain; Region: NifZ; pfam04319 187303006797 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 187303006798 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 187303006799 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 187303006800 inhibitor-cofactor binding pocket; inhibition site 187303006801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303006802 catalytic residue [active] 187303006803 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 187303006804 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 187303006805 catalytic loop [active] 187303006806 iron binding site [ion binding]; other site 187303006807 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 187303006808 iron-sulfur cluster [ion binding]; other site 187303006809 [2Fe-2S] cluster binding site [ion binding]; other site 187303006810 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 187303006811 iron-sulfur cluster [ion binding]; other site 187303006812 [2Fe-2S] cluster binding site [ion binding]; other site 187303006813 Dienelactone hydrolase family; Region: DLH; pfam01738 187303006814 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 187303006815 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 187303006816 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 187303006817 [2Fe-2S] cluster binding site [ion binding]; other site 187303006818 dimer interface [polypeptide binding]; other site 187303006819 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 187303006820 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 187303006821 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 187303006822 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 187303006823 Response regulator receiver domain; Region: Response_reg; pfam00072 187303006824 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 187303006825 active site 187303006826 phosphorylation site [posttranslational modification] 187303006827 intermolecular recognition site; other site 187303006828 dimerization interface [polypeptide binding]; other site 187303006829 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 187303006830 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 187303006831 Nucleotide-binding sites [chemical binding]; other site 187303006832 Walker A motif; other site 187303006833 Switch I region of nucleotide binding site; other site 187303006834 Fe4S4 binding sites [ion binding]; other site 187303006835 Switch II region of nucleotide binding site; other site 187303006836 NifQ; Region: NifQ; pfam04891 187303006837 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 187303006838 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 187303006839 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 187303006840 active site 187303006841 catalytic residues [active] 187303006842 metal binding site [ion binding]; metal-binding site 187303006843 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 187303006844 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 187303006845 trimer interface [polypeptide binding]; other site 187303006846 active site 187303006847 substrate binding site [chemical binding]; other site 187303006848 CoA binding site [chemical binding]; other site 187303006849 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 187303006850 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 187303006851 Ligand binding site [chemical binding]; other site 187303006852 Electron transfer flavoprotein domain; Region: ETF; pfam01012 187303006853 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 187303006854 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 187303006855 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 187303006856 oxidoreductase; Provisional; Region: PRK10015 187303006857 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 187303006858 glutathionine S-transferase; Provisional; Region: PRK10542 187303006859 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 187303006860 C-terminal domain interface [polypeptide binding]; other site 187303006861 GSH binding site (G-site) [chemical binding]; other site 187303006862 dimer interface [polypeptide binding]; other site 187303006863 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 187303006864 dimer interface [polypeptide binding]; other site 187303006865 N-terminal domain interface [polypeptide binding]; other site 187303006866 substrate binding pocket (H-site) [chemical binding]; other site 187303006867 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 187303006868 apolar tunnel; other site 187303006869 heme binding site [chemical binding]; other site 187303006870 dimerization interface [polypeptide binding]; other site 187303006871 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 187303006872 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 187303006873 [2Fe-2S] cluster binding site [ion binding]; other site 187303006874 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 187303006875 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 187303006876 Protein of unknown function (DUF938); Region: DUF938; pfam06080 187303006877 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 187303006878 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 187303006879 Walker A motif; other site 187303006880 ATP binding site [chemical binding]; other site 187303006881 Walker B motif; other site 187303006882 arginine finger; other site 187303006883 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 187303006884 NADPH bind site [chemical binding]; other site 187303006885 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 187303006886 putative FMN binding site [chemical binding]; other site 187303006887 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 187303006888 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 187303006889 FMN-binding pocket [chemical binding]; other site 187303006890 flavin binding motif; other site 187303006891 phosphate binding motif [ion binding]; other site 187303006892 beta-alpha-beta structure motif; other site 187303006893 NAD binding pocket [chemical binding]; other site 187303006894 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 187303006895 catalytic loop [active] 187303006896 iron binding site [ion binding]; other site 187303006897 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 187303006898 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 187303006899 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 187303006900 Subunit I/III interface [polypeptide binding]; other site 187303006901 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 187303006902 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 187303006903 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303006904 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 187303006905 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 187303006906 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 187303006907 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 187303006908 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 187303006909 molybdopterin cofactor binding site; other site 187303006910 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 187303006911 4Fe-4S binding domain; Region: Fer4; cl02805 187303006912 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 187303006913 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 187303006914 heme-binding residues [chemical binding]; other site 187303006915 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 187303006916 General stress protein [General function prediction only]; Region: GsiB; COG3729 187303006917 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 187303006918 ATP binding site [chemical binding]; other site 187303006919 Mg2+ binding site [ion binding]; other site 187303006920 G-X-G motif; other site 187303006921 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 187303006922 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 187303006923 active site 187303006924 phosphorylation site [posttranslational modification] 187303006925 intermolecular recognition site; other site 187303006926 dimerization interface [polypeptide binding]; other site 187303006927 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 187303006928 DNA binding residues [nucleotide binding] 187303006929 dimerization interface [polypeptide binding]; other site 187303006930 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 187303006931 Response regulator receiver domain; Region: Response_reg; pfam00072 187303006932 active site 187303006933 phosphorylation site [posttranslational modification] 187303006934 intermolecular recognition site; other site 187303006935 dimerization interface [polypeptide binding]; other site 187303006936 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 187303006937 PAS fold; Region: PAS_3; pfam08447 187303006938 putative active site [active] 187303006939 heme pocket [chemical binding]; other site 187303006940 PAS domain S-box; Region: sensory_box; TIGR00229 187303006941 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 187303006942 putative active site [active] 187303006943 heme pocket [chemical binding]; other site 187303006944 PAS domain S-box; Region: sensory_box; TIGR00229 187303006945 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 187303006946 putative active site [active] 187303006947 heme pocket [chemical binding]; other site 187303006948 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 187303006949 PAS fold; Region: PAS_3; pfam08447 187303006950 putative active site [active] 187303006951 heme pocket [chemical binding]; other site 187303006952 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 187303006953 PAS fold; Region: PAS_3; pfam08447 187303006954 putative active site [active] 187303006955 heme pocket [chemical binding]; other site 187303006956 PAS domain S-box; Region: sensory_box; TIGR00229 187303006957 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 187303006958 putative active site [active] 187303006959 heme pocket [chemical binding]; other site 187303006960 PAS fold; Region: PAS_3; pfam08447 187303006961 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 187303006962 putative active site [active] 187303006963 heme pocket [chemical binding]; other site 187303006964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303006965 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 187303006966 dimer interface [polypeptide binding]; other site 187303006967 phosphorylation site [posttranslational modification] 187303006968 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 187303006969 ATP binding site [chemical binding]; other site 187303006970 Mg2+ binding site [ion binding]; other site 187303006971 G-X-G motif; other site 187303006972 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 187303006973 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 187303006974 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303006975 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 187303006976 motif II; other site 187303006977 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 187303006978 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 187303006979 N-terminal plug; other site 187303006980 ligand-binding site [chemical binding]; other site 187303006981 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 187303006982 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 187303006983 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 187303006984 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 187303006985 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 187303006986 Condensation domain; Region: Condensation; pfam00668 187303006987 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 187303006988 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 187303006989 acyl-activating enzyme (AAE) consensus motif; other site 187303006990 AMP binding site [chemical binding]; other site 187303006991 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 187303006992 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 187303006993 acyl-activating enzyme (AAE) consensus motif; other site 187303006994 AMP binding site [chemical binding]; other site 187303006995 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 187303006996 enterobactin exporter EntS; Provisional; Region: PRK10489 187303006997 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 187303006998 putative substrate translocation pore; other site 187303006999 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 187303007000 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 187303007001 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 187303007002 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 187303007003 acyl-activating enzyme (AAE) consensus motif; other site 187303007004 active site 187303007005 AMP binding site [chemical binding]; other site 187303007006 substrate binding site [chemical binding]; other site 187303007007 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 187303007008 Isochorismatase family; Region: Isochorismatase; pfam00857 187303007009 catalytic triad [active] 187303007010 conserved cis-peptide bond; other site 187303007011 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 187303007012 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 187303007013 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 187303007014 putative NAD(P) binding site [chemical binding]; other site 187303007015 active site 187303007016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187303007017 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 187303007018 substrate binding pocket [chemical binding]; other site 187303007019 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 187303007020 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 187303007021 membrane-bound complex binding site; other site 187303007022 hinge residues; other site 187303007023 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 187303007024 Putative ParB-like nuclease; Region: ParBc_2; cl17538 187303007025 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 187303007026 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303007027 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 187303007028 S-adenosylmethionine binding site [chemical binding]; other site 187303007029 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 187303007030 salt bridge; other site 187303007031 non-specific DNA binding site [nucleotide binding]; other site 187303007032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 187303007033 sequence-specific DNA binding site [nucleotide binding]; other site 187303007034 MAPEG family; Region: MAPEG; cl09190 187303007035 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 187303007036 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 187303007037 dimer interface [polypeptide binding]; other site 187303007038 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303007039 metal binding site [ion binding]; metal-binding site 187303007040 Uncharacterized conserved protein [Function unknown]; Region: COG2128 187303007041 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 187303007042 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 187303007043 PYR/PP interface [polypeptide binding]; other site 187303007044 dimer interface [polypeptide binding]; other site 187303007045 TPP binding site [chemical binding]; other site 187303007046 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187303007047 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 187303007048 TPP-binding site [chemical binding]; other site 187303007049 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 187303007050 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 187303007051 ATP-dependent DNA ligase; Validated; Region: PRK09247 187303007052 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 187303007053 active site 187303007054 DNA binding site [nucleotide binding] 187303007055 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 187303007056 DNA binding site [nucleotide binding] 187303007057 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 187303007058 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 187303007059 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 187303007060 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 187303007061 active site 187303007062 ATP binding site [chemical binding]; other site 187303007063 substrate binding site [chemical binding]; other site 187303007064 dimer interface [polypeptide binding]; other site 187303007065 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 187303007066 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 187303007067 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 187303007068 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 187303007069 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 187303007070 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 187303007071 inhibitor-cofactor binding pocket; inhibition site 187303007072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007073 catalytic residue [active] 187303007074 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 187303007075 aldehyde dehydrogenase family 7 member; Region: PLN02315 187303007076 tetrameric interface [polypeptide binding]; other site 187303007077 NAD binding site [chemical binding]; other site 187303007078 catalytic residues [active] 187303007079 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 187303007080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 187303007081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303007082 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303007083 NAD(P) binding site [chemical binding]; other site 187303007084 active site 187303007085 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 187303007086 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 187303007087 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303007088 catalytic residue [active] 187303007089 methionine gamma-lyase; Validated; Region: PRK07049 187303007090 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 187303007091 homodimer interface [polypeptide binding]; other site 187303007092 substrate-cofactor binding pocket; other site 187303007093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007094 catalytic residue [active] 187303007095 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 187303007096 anti sigma factor interaction site; other site 187303007097 regulatory phosphorylation site [posttranslational modification]; other site 187303007098 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 187303007099 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 187303007100 Mg2+ binding site [ion binding]; other site 187303007101 G-X-G motif; other site 187303007102 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 187303007103 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 187303007104 PAS domain; Region: PAS; smart00091 187303007105 PAS domain S-box; Region: sensory_box; TIGR00229 187303007106 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 187303007107 putative active site [active] 187303007108 heme pocket [chemical binding]; other site 187303007109 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 187303007110 PAS domain; Region: PAS_9; pfam13426 187303007111 putative active site [active] 187303007112 heme pocket [chemical binding]; other site 187303007113 PAS domain S-box; Region: sensory_box; TIGR00229 187303007114 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 187303007115 putative active site [active] 187303007116 heme pocket [chemical binding]; other site 187303007117 PAS domain S-box; Region: sensory_box; TIGR00229 187303007118 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 187303007119 putative active site [active] 187303007120 heme pocket [chemical binding]; other site 187303007121 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 187303007122 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 187303007123 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 187303007124 diiron binding motif [ion binding]; other site 187303007125 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 187303007126 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 187303007127 catalytic loop [active] 187303007128 iron binding site [ion binding]; other site 187303007129 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 187303007130 diiron binding motif [ion binding]; other site 187303007131 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 187303007132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303007133 active site 187303007134 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 187303007135 dimer interface [polypeptide binding]; other site 187303007136 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 187303007137 MarR family; Region: MarR_2; pfam12802 187303007138 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 187303007139 putative dimer interface [polypeptide binding]; other site 187303007140 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303007141 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 187303007142 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 187303007143 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303007144 intracellular septation protein A; Reviewed; Region: PRK00259 187303007145 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 187303007146 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 187303007147 active site 187303007148 DNA binding site [nucleotide binding] 187303007149 Int/Topo IB signature motif; other site 187303007150 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 187303007151 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 187303007152 active site 187303007153 catalytic residues [active] 187303007154 DNA binding site [nucleotide binding] 187303007155 Int/Topo IB signature motif; other site 187303007156 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 187303007157 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 187303007158 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 187303007159 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 187303007160 nucleophile elbow; other site 187303007161 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 187303007162 active site 187303007163 NTP binding site [chemical binding]; other site 187303007164 metal binding triad [ion binding]; metal-binding site 187303007165 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 187303007166 Predicted membrane protein [Function unknown]; Region: COG3766 187303007167 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 187303007168 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 187303007169 S-adenosylmethionine binding site [chemical binding]; other site 187303007170 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 187303007171 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 187303007172 CoA-ligase; Region: Ligase_CoA; pfam00549 187303007173 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 187303007174 TPR motif; other site 187303007175 binding surface 187303007176 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 187303007177 binding surface 187303007178 TPR motif; other site 187303007179 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 187303007180 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 187303007181 binding surface 187303007182 TPR motif; other site 187303007183 EVE domain; Region: EVE; pfam01878 187303007184 YCII-related domain; Region: YCII; cl00999 187303007185 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 187303007186 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 187303007187 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 187303007188 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 187303007189 active site 187303007190 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 187303007191 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 187303007192 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303007193 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 187303007194 active site 187303007195 phosphorylation site [posttranslational modification] 187303007196 intermolecular recognition site; other site 187303007197 dimerization interface [polypeptide binding]; other site 187303007198 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 187303007199 DNA binding site [nucleotide binding] 187303007200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 187303007201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 187303007202 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 187303007203 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 187303007204 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 187303007205 Cu(I) binding site [ion binding]; other site 187303007206 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 187303007207 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 187303007208 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 187303007209 Ribonuclease P; Region: Ribonuclease_P; pfam00825 187303007210 membrane protein insertase; Provisional; Region: PRK01318 187303007211 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 187303007212 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 187303007213 G1 box; other site 187303007214 GTP/Mg2+ binding site [chemical binding]; other site 187303007215 Switch I region; other site 187303007216 G2 box; other site 187303007217 G3 box; other site 187303007218 Switch II region; other site 187303007219 G4 box; other site 187303007220 G5 box; other site 187303007221 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 187303007222 feedback inhibition sensing region; other site 187303007223 homohexameric interface [polypeptide binding]; other site 187303007224 nucleotide binding site [chemical binding]; other site 187303007225 N-acetyl-L-glutamate binding site [chemical binding]; other site 187303007226 NAD-dependent deacetylase; Provisional; Region: PRK00481 187303007227 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 187303007228 NAD+ binding site [chemical binding]; other site 187303007229 substrate binding site [chemical binding]; other site 187303007230 Zn binding site [ion binding]; other site 187303007231 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 187303007232 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 187303007233 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 187303007234 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 187303007235 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 187303007236 trimer interface [polypeptide binding]; other site 187303007237 active site 187303007238 substrate binding site [chemical binding]; other site 187303007239 CoA binding site [chemical binding]; other site 187303007240 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 187303007241 YcfA-like protein; Region: YcfA; pfam07927 187303007242 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 187303007243 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 187303007244 metal binding site [ion binding]; metal-binding site 187303007245 dimer interface [polypeptide binding]; other site 187303007246 Putative phosphatase (DUF442); Region: DUF442; cl17385 187303007247 aminotransferase; Validated; Region: PRK09148 187303007248 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 187303007249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007250 homodimer interface [polypeptide binding]; other site 187303007251 catalytic residue [active] 187303007252 hypothetical protein; Provisional; Region: PRK06132 187303007253 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303007254 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 187303007255 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 187303007256 conserved cys residue [active] 187303007257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303007258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 187303007259 HypX protein, N-terminal hydrolase domain; Region: FMT_core_HypX_N; cd08650 187303007260 putative active site [active] 187303007261 putative substrate binding site [chemical binding]; other site 187303007262 putative cosubstrate binding site; other site 187303007263 catalytic site [active] 187303007264 C-terminal subdomain of the Formyltransferase-like domain found in HypX-like proteins; Region: FMT_C_HypX; cd08701 187303007265 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 187303007266 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 187303007267 substrate binding site [chemical binding]; other site 187303007268 oxyanion hole (OAH) forming residues; other site 187303007269 trimer interface [polypeptide binding]; other site 187303007270 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 187303007271 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 187303007272 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 187303007273 Protein of unknown function DUF262; Region: DUF262; pfam03235 187303007274 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 187303007275 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; cd00488 187303007276 aromatic arch; other site 187303007277 DCoH dimer interaction site [polypeptide binding]; other site 187303007278 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 187303007279 DCoH tetramer interaction site [polypeptide binding]; other site 187303007280 substrate binding site [chemical binding]; other site 187303007281 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 187303007282 dihydropteroate synthase; Region: DHPS; TIGR01496 187303007283 substrate binding pocket [chemical binding]; other site 187303007284 dimer interface [polypeptide binding]; other site 187303007285 inhibitor binding site; inhibition site 187303007286 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 187303007287 catalytic center binding site [active] 187303007288 ATP binding site [chemical binding]; other site 187303007289 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 187303007290 Ammonia monooxygenase; Region: AMO; pfam02461 187303007291 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 187303007292 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 187303007293 High-affinity nickel-transport protein; Region: NicO; cl00964 187303007294 High-affinity nickel-transport protein; Region: NicO; cl00964 187303007295 short chain dehydrogenase; Provisional; Region: PRK08278 187303007296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303007297 NAD(P) binding site [chemical binding]; other site 187303007298 active site 187303007299 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 187303007300 metal-binding site [ion binding] 187303007301 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 187303007302 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 187303007303 metal-binding site [ion binding] 187303007304 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 187303007305 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 187303007306 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 187303007307 metal-binding site [ion binding] 187303007308 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 187303007309 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 187303007310 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 187303007311 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303007312 catalytic residue [active] 187303007313 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 187303007314 AAA domain; Region: AAA_26; pfam13500 187303007315 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 187303007316 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 187303007317 inhibitor-cofactor binding pocket; inhibition site 187303007318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007319 catalytic residue [active] 187303007320 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 187303007321 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 187303007322 acyl-activating enzyme (AAE) consensus motif; other site 187303007323 putative AMP binding site [chemical binding]; other site 187303007324 putative active site [active] 187303007325 putative CoA binding site [chemical binding]; other site 187303007326 High-affinity nickel-transport protein; Region: NicO; cl00964 187303007327 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 187303007328 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 187303007329 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 187303007330 dimer interface [polypeptide binding]; other site 187303007331 PYR/PP interface [polypeptide binding]; other site 187303007332 TPP binding site [chemical binding]; other site 187303007333 substrate binding site [chemical binding]; other site 187303007334 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 187303007335 TPP-binding site [chemical binding]; other site 187303007336 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 187303007337 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 187303007338 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 187303007339 cobyric acid synthase; Provisional; Region: PRK00784 187303007340 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303007341 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303007342 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 187303007343 catalytic triad [active] 187303007344 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 187303007345 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 187303007346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007347 homodimer interface [polypeptide binding]; other site 187303007348 catalytic residue [active] 187303007349 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 187303007350 putative FMN binding site [chemical binding]; other site 187303007351 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 187303007352 Protein export membrane protein; Region: SecD_SecF; cl14618 187303007353 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 187303007354 Protein export membrane protein; Region: SecD_SecF; cl14618 187303007355 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303007356 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303007357 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303007358 Outer membrane efflux protein; Region: OEP; pfam02321 187303007359 Outer membrane efflux protein; Region: OEP; pfam02321 187303007360 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 187303007361 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 187303007362 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 187303007363 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 187303007364 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 187303007365 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 187303007366 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 187303007367 Transglycosylase SLT domain; Region: SLT_2; pfam13406 187303007368 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303007369 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303007370 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 187303007371 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 187303007372 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 187303007373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 187303007374 catalytic residue [active] 187303007375 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 187303007376 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 187303007377 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 187303007378 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 187303007379 PAS domain; Region: PAS_9; pfam13426 187303007380 putative active site [active] 187303007381 heme pocket [chemical binding]; other site 187303007382 PAS domain; Region: PAS_9; pfam13426 187303007383 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 187303007384 GAF domain; Region: GAF; pfam01590 187303007385 PAS domain S-box; Region: sensory_box; TIGR00229 187303007386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303007387 HWE histidine kinase; Region: HWE_HK; pfam07536 187303007388 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 187303007389 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 187303007390 motif II; other site 187303007391 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 187303007392 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 187303007393 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 187303007394 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 187303007395 hydrogenase 4 subunit F; Validated; Region: PRK06458 187303007396 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 187303007397 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 187303007398 NADH dehydrogenase; Region: NADHdh; cl00469 187303007399 hydrogenase 4 subunit B; Validated; Region: PRK06521 187303007400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 187303007401 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 187303007402 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 187303007403 Sulfate transporter family; Region: Sulfate_transp; pfam00916 187303007404 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 187303007405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303007406 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 187303007407 active site 187303007408 phosphorylation site [posttranslational modification] 187303007409 intermolecular recognition site; other site 187303007410 dimerization interface [polypeptide binding]; other site 187303007411 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 187303007412 DNA binding site [nucleotide binding] 187303007413 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 187303007414 dimerization interface [polypeptide binding]; other site 187303007415 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 187303007416 ATP binding site [chemical binding]; other site 187303007417 Mg2+ binding site [ion binding]; other site 187303007418 G-X-G motif; other site 187303007419 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 187303007420 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 187303007421 AsnC family; Region: AsnC_trans_reg; pfam01037 187303007422 ornithine cyclodeaminase; Validated; Region: PRK07589 187303007423 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 187303007424 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 187303007425 Amidinotransferase; Region: Amidinotransf; pfam02274 187303007426 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 187303007427 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 187303007428 dimer interface [polypeptide binding]; other site 187303007429 decamer (pentamer of dimers) interface [polypeptide binding]; other site 187303007430 catalytic triad [active] 187303007431 peroxidatic and resolving cysteines [active] 187303007432 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 187303007433 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 187303007434 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 187303007435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187303007436 Coenzyme A binding pocket [chemical binding]; other site 187303007437 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 187303007438 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 187303007439 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 187303007440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 187303007441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303007442 active site 187303007443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303007444 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303007445 hypothetical protein; Validated; Region: PRK00041 187303007446 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 187303007447 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 187303007448 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 187303007449 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 187303007450 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 187303007451 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 187303007452 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 187303007453 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 187303007454 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 187303007455 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 187303007456 DNA binding site [nucleotide binding] 187303007457 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 187303007458 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 187303007459 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 187303007460 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 187303007461 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 187303007462 RPB11 interaction site [polypeptide binding]; other site 187303007463 RPB12 interaction site [polypeptide binding]; other site 187303007464 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 187303007465 RPB3 interaction site [polypeptide binding]; other site 187303007466 RPB1 interaction site [polypeptide binding]; other site 187303007467 RPB11 interaction site [polypeptide binding]; other site 187303007468 RPB10 interaction site [polypeptide binding]; other site 187303007469 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 187303007470 L11 interface [polypeptide binding]; other site 187303007471 putative EF-Tu interaction site [polypeptide binding]; other site 187303007472 putative EF-G interaction site [polypeptide binding]; other site 187303007473 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 187303007474 23S rRNA interface [nucleotide binding]; other site 187303007475 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 187303007476 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 187303007477 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 187303007478 putative tRNA-binding site [nucleotide binding]; other site 187303007479 B3/4 domain; Region: B3_4; pfam03483 187303007480 tRNA synthetase B5 domain; Region: B5; smart00874 187303007481 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 187303007482 dimer interface [polypeptide binding]; other site 187303007483 motif 1; other site 187303007484 motif 3; other site 187303007485 motif 2; other site 187303007486 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 187303007487 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 187303007488 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 187303007489 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 187303007490 dimer interface [polypeptide binding]; other site 187303007491 motif 1; other site 187303007492 active site 187303007493 motif 2; other site 187303007494 motif 3; other site 187303007495 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 187303007496 phosphate acetyltransferase; Provisional; Region: PRK11890 187303007497 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 187303007498 Protein of unknown function DUF45; Region: DUF45; pfam01863 187303007499 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 187303007500 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 187303007501 Cu(I) binding site [ion binding]; other site 187303007502 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 187303007503 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 187303007504 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 187303007505 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 187303007506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303007507 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 187303007508 DNA binding residues [nucleotide binding] 187303007509 C factor cell-cell signaling protein; Provisional; Region: PRK09009 187303007510 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 187303007511 NADP binding site [chemical binding]; other site 187303007512 homodimer interface [polypeptide binding]; other site 187303007513 active site 187303007514 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 187303007515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303007516 Walker A/P-loop; other site 187303007517 ATP binding site [chemical binding]; other site 187303007518 Q-loop/lid; other site 187303007519 ABC transporter signature motif; other site 187303007520 Walker B; other site 187303007521 D-loop; other site 187303007522 H-loop/switch region; other site 187303007523 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 187303007524 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 187303007525 dimer interface [polypeptide binding]; other site 187303007526 conserved gate region; other site 187303007527 putative PBP binding loops; other site 187303007528 ABC-ATPase subunit interface; other site 187303007529 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 187303007530 NMT1/THI5 like; Region: NMT1; pfam09084 187303007531 substrate binding pocket [chemical binding]; other site 187303007532 membrane-bound complex binding site; other site 187303007533 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 187303007534 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 187303007535 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 187303007536 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 187303007537 Mg2+ binding site [ion binding]; other site 187303007538 G-X-G motif; other site 187303007539 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 187303007540 anchoring element; other site 187303007541 dimer interface [polypeptide binding]; other site 187303007542 ATP binding site [chemical binding]; other site 187303007543 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 187303007544 active site 187303007545 metal binding site [ion binding]; metal-binding site 187303007546 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 187303007547 PAS fold; Region: PAS_3; pfam08447 187303007548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 187303007549 HWE histidine kinase; Region: HWE_HK; smart00911 187303007550 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 187303007551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 187303007552 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 187303007553 active site 187303007554 8-oxo-dGMP binding site [chemical binding]; other site 187303007555 nudix motif; other site 187303007556 metal binding site [ion binding]; metal-binding site 187303007557 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 187303007558 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 187303007559 heterotetramer interface [polypeptide binding]; other site 187303007560 active site pocket [active] 187303007561 cleavage site 187303007562 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 187303007563 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 187303007564 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 187303007565 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187303007566 metal binding triad; other site 187303007567 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 187303007568 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187303007569 metal binding triad; other site 187303007570 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 187303007571 Protein of unknown function (DUF815); Region: DUF815; pfam05673 187303007572 Walker A motif; other site 187303007573 ATP binding site [chemical binding]; other site 187303007574 Walker B motif; other site 187303007575 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 187303007576 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 187303007577 minor groove reading motif; other site 187303007578 helix-hairpin-helix signature motif; other site 187303007579 substrate binding pocket [chemical binding]; other site 187303007580 active site 187303007581 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 187303007582 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 187303007583 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 187303007584 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 187303007585 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303007586 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 187303007587 dimer interface [polypeptide binding]; other site 187303007588 active site 187303007589 metal binding site [ion binding]; metal-binding site 187303007590 glutathione binding site [chemical binding]; other site 187303007591 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 187303007592 Cation efflux family; Region: Cation_efflux; cl00316 187303007593 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 187303007594 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 187303007595 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 187303007596 phosphoglucomutase; Region: PLN02307 187303007597 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 187303007598 active site 187303007599 substrate binding site [chemical binding]; other site 187303007600 metal binding site [ion binding]; metal-binding site 187303007601 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 187303007602 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303007603 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 187303007604 ligand binding site [chemical binding]; other site 187303007605 flexible hinge region; other site 187303007606 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303007607 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 187303007608 DNA binding site [nucleotide binding] 187303007609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 187303007610 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 187303007611 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 187303007612 catalytic residue [active] 187303007613 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 187303007614 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 187303007615 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 187303007616 HIGH motif; other site 187303007617 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 187303007618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 187303007619 active site 187303007620 KMSKS motif; other site 187303007621 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 187303007622 tRNA binding surface [nucleotide binding]; other site 187303007623 Lipopolysaccharide-assembly; Region: LptE; cl01125 187303007624 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 187303007625 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 187303007626 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303007627 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 187303007628 C-terminal domain interface [polypeptide binding]; other site 187303007629 GSH binding site (G-site) [chemical binding]; other site 187303007630 dimer interface [polypeptide binding]; other site 187303007631 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 187303007632 N-terminal domain interface [polypeptide binding]; other site 187303007633 dimer interface [polypeptide binding]; other site 187303007634 substrate binding pocket (H-site) [chemical binding]; other site 187303007635 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 187303007636 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 187303007637 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 187303007638 Predicted transcriptional regulators [Transcription]; Region: COG1733 187303007639 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 187303007640 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 187303007641 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 187303007642 putative active site [active] 187303007643 catalytic triad [active] 187303007644 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 187303007645 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 187303007646 putative active site [active] 187303007647 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 187303007648 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 187303007649 ATP binding site [chemical binding]; other site 187303007650 active site 187303007651 substrate binding site [chemical binding]; other site 187303007652 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 187303007653 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 187303007654 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 187303007655 active site 187303007656 DNA binding site [nucleotide binding] 187303007657 Int/Topo IB signature motif; other site 187303007658 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 187303007659 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 187303007660 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 187303007661 dimerization interface [polypeptide binding]; other site 187303007662 active site 187303007663 Predicted periplasmic protein [Function unknown]; Region: COG3698 187303007664 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 187303007665 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 187303007666 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 187303007667 HIGH motif; other site 187303007668 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 187303007669 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 187303007670 active site 187303007671 KMSKS motif; other site 187303007672 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 187303007673 tRNA binding surface [nucleotide binding]; other site 187303007674 anticodon binding site; other site 187303007675 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 187303007676 enolase; Provisional; Region: eno; PRK00077 187303007677 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 187303007678 dimer interface [polypeptide binding]; other site 187303007679 metal binding site [ion binding]; metal-binding site 187303007680 substrate binding pocket [chemical binding]; other site 187303007681 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 187303007682 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 187303007683 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 187303007684 dimerization interface [polypeptide binding]; other site 187303007685 Heme NO binding associated; Region: HNOBA; pfam07701 187303007686 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 187303007687 cyclase homology domain; Region: CHD; cd07302 187303007688 nucleotidyl binding site; other site 187303007689 metal binding site [ion binding]; metal-binding site 187303007690 dimer interface [polypeptide binding]; other site 187303007691 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 187303007692 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 187303007693 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 187303007694 putative active site [active] 187303007695 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 187303007696 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 187303007697 ligand binding site [chemical binding]; other site 187303007698 flexible hinge region; other site 187303007699 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 187303007700 putative switch regulator; other site 187303007701 non-specific DNA interactions [nucleotide binding]; other site 187303007702 DNA binding site [nucleotide binding] 187303007703 sequence specific DNA binding site [nucleotide binding]; other site 187303007704 putative cAMP binding site [chemical binding]; other site 187303007705 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 187303007706 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 187303007707 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 187303007708 putative uracil binding site [chemical binding]; other site 187303007709 putative active site [active] 187303007710 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303007711 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 187303007712 putative C-terminal domain interface [polypeptide binding]; other site 187303007713 putative GSH binding site (G-site) [chemical binding]; other site 187303007714 putative dimer interface [polypeptide binding]; other site 187303007715 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 187303007716 N-terminal domain interface [polypeptide binding]; other site 187303007717 dimer interface [polypeptide binding]; other site 187303007718 substrate binding pocket (H-site) [chemical binding]; other site 187303007719 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 187303007720 Ligand Binding Site [chemical binding]; other site 187303007721 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303007722 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 187303007723 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 187303007724 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 187303007725 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 187303007726 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 187303007727 putative active site [active] 187303007728 Zn binding site [ion binding]; other site 187303007729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303007730 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303007731 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 187303007732 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 187303007733 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303007734 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 187303007735 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 187303007736 GSCFA family; Region: GSCFA; pfam08885 187303007737 Methyltransferase domain; Region: Methyltransf_23; pfam13489 187303007738 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 187303007739 S-adenosylmethionine binding site [chemical binding]; other site 187303007740 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 187303007741 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 187303007742 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 187303007743 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 187303007744 substrate binding site [chemical binding]; other site 187303007745 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 187303007746 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 187303007747 homotrimer interface [polypeptide binding]; other site 187303007748 Walker A motif; other site 187303007749 GTP binding site [chemical binding]; other site 187303007750 Walker B motif; other site 187303007751 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 187303007752 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 187303007753 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 187303007754 homodimer interface [polypeptide binding]; other site 187303007755 substrate-cofactor binding pocket; other site 187303007756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007757 catalytic residue [active] 187303007758 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 187303007759 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 187303007760 psiF repeat; Region: PsiF_repeat; pfam07769 187303007761 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 187303007762 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 187303007763 substrate binding pocket [chemical binding]; other site 187303007764 chain length determination region; other site 187303007765 substrate-Mg2+ binding site; other site 187303007766 catalytic residues [active] 187303007767 aspartate-rich region 1; other site 187303007768 active site lid residues [active] 187303007769 aspartate-rich region 2; other site 187303007770 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 187303007771 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 187303007772 B12 binding site [chemical binding]; other site 187303007773 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 187303007774 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 187303007775 FeS/SAM binding site; other site 187303007776 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 187303007777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 187303007778 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 187303007779 Thymidine phosphorylase [Nucleotide transport and metabolism]; Region: DeoA; COG0213 187303007780 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 187303007781 dimer interface [polypeptide binding]; other site 187303007782 motif 1; other site 187303007783 active site 187303007784 motif 2; other site 187303007785 motif 3; other site 187303007786 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 187303007787 putative active site pocket [active] 187303007788 dimerization interface [polypeptide binding]; other site 187303007789 putative catalytic residue [active] 187303007790 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 187303007791 AAA domain; Region: AAA_23; pfam13476 187303007792 Walker A/P-loop; other site 187303007793 ATP binding site [chemical binding]; other site 187303007794 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 187303007795 ABC transporter signature motif; other site 187303007796 Walker B; other site 187303007797 D-loop; other site 187303007798 H-loop/switch region; other site 187303007799 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303007800 Domain of unknown function DUF20; Region: UPF0118; pfam01594 187303007801 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 187303007802 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 187303007803 Subunit I/III interface [polypeptide binding]; other site 187303007804 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 187303007805 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 187303007806 D-pathway; other site 187303007807 Putative ubiquinol binding site [chemical binding]; other site 187303007808 Low-spin heme (heme b) binding site [chemical binding]; other site 187303007809 Putative water exit pathway; other site 187303007810 Binuclear center (heme o3/CuB) [ion binding]; other site 187303007811 K-pathway; other site 187303007812 Putative proton exit pathway; other site 187303007813 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 187303007814 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303007815 Cytochrome c; Region: Cytochrom_C; pfam00034 187303007816 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 187303007817 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 187303007818 dimanganese center [ion binding]; other site 187303007819 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303007820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303007821 NAD(P) binding site [chemical binding]; other site 187303007822 active site 187303007823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303007824 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303007825 NAD(P) binding site [chemical binding]; other site 187303007826 active site 187303007827 B12-binding domain/radical SAM domain protein, rhizo-twelve system; Region: B12_rSAM_oligo; TIGR04295 187303007828 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 187303007829 B12 binding site [chemical binding]; other site 187303007830 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 187303007831 FeS/SAM binding site; other site 187303007832 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 187303007833 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 187303007834 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 187303007835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 187303007836 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 187303007837 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 187303007838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 187303007839 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 187303007840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 187303007841 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 187303007842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303007843 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 187303007844 NAD(P) binding site [chemical binding]; other site 187303007845 active site 187303007846 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 187303007847 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 187303007848 S-adenosylmethionine binding site [chemical binding]; other site 187303007849 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 187303007850 catalytic core [active] 187303007851 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 187303007852 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 187303007853 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 187303007854 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 187303007855 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 187303007856 Cytochrome c; Region: Cytochrom_C; cl11414 187303007857 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 187303007858 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 187303007859 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 187303007860 substrate binding pocket [chemical binding]; other site 187303007861 membrane-bound complex binding site; other site 187303007862 hinge residues; other site 187303007863 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 187303007864 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 187303007865 Trp docking motif [polypeptide binding]; other site 187303007866 active site 187303007867 CAAX protease self-immunity; Region: Abi; pfam02517 187303007868 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 187303007869 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 187303007870 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 187303007871 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 187303007872 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 187303007873 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 187303007874 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 187303007875 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 187303007876 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 187303007877 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 187303007878 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 187303007879 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 187303007880 Subunit I/III interface [polypeptide binding]; other site 187303007881 D-pathway; other site 187303007882 Subunit I/VIIc interface [polypeptide binding]; other site 187303007883 Subunit I/IV interface [polypeptide binding]; other site 187303007884 Subunit I/II interface [polypeptide binding]; other site 187303007885 Low-spin heme (heme a) binding site [chemical binding]; other site 187303007886 Subunit I/VIIa interface [polypeptide binding]; other site 187303007887 Subunit I/VIa interface [polypeptide binding]; other site 187303007888 Dimer interface; other site 187303007889 Putative water exit pathway; other site 187303007890 Binuclear center (heme a3/CuB) [ion binding]; other site 187303007891 K-pathway; other site 187303007892 Subunit I/Vb interface [polypeptide binding]; other site 187303007893 Putative proton exit pathway; other site 187303007894 Subunit I/VIb interface; other site 187303007895 Subunit I/VIc interface [polypeptide binding]; other site 187303007896 Electron transfer pathway; other site 187303007897 Subunit I/VIIIb interface [polypeptide binding]; other site 187303007898 Subunit I/VIIb interface [polypeptide binding]; other site 187303007899 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 187303007900 UbiA prenyltransferase family; Region: UbiA; pfam01040 187303007901 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 187303007902 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 187303007903 Subunit III/VIIa interface [polypeptide binding]; other site 187303007904 Phospholipid binding site [chemical binding]; other site 187303007905 Subunit I/III interface [polypeptide binding]; other site 187303007906 Subunit III/VIb interface [polypeptide binding]; other site 187303007907 Subunit III/VIa interface; other site 187303007908 Subunit III/Vb interface [polypeptide binding]; other site 187303007909 Protein of unknown function (DUF983); Region: DUF983; cl02211 187303007910 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 187303007911 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 187303007912 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 187303007913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303007914 catalytic residue [active] 187303007915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303007916 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 187303007917 ribonuclease PH; Reviewed; Region: rph; PRK00173 187303007918 Ribonuclease PH; Region: RNase_PH_bact; cd11362 187303007919 hexamer interface [polypeptide binding]; other site 187303007920 active site 187303007921 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 187303007922 elongation factor G; Reviewed; Region: PRK12740 187303007923 G1 box; other site 187303007924 putative GEF interaction site [polypeptide binding]; other site 187303007925 GTP/Mg2+ binding site [chemical binding]; other site 187303007926 Switch I region; other site 187303007927 G2 box; other site 187303007928 G3 box; other site 187303007929 Switch II region; other site 187303007930 G4 box; other site 187303007931 G5 box; other site 187303007932 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 187303007933 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 187303007934 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 187303007935 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 187303007936 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 187303007937 4Fe-4S binding domain; Region: Fer4; pfam00037 187303007938 SCP-2 sterol transfer family; Region: SCP2; pfam02036 187303007939 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 187303007940 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 187303007941 putative Zn2+ binding site [ion binding]; other site 187303007942 putative DNA binding site [nucleotide binding]; other site 187303007943 Pirin-related protein [General function prediction only]; Region: COG1741 187303007944 Pirin; Region: Pirin; pfam02678 187303007945 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 187303007946 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 187303007947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303007948 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303007949 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 187303007950 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 187303007951 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 187303007952 NAD(P) binding site [chemical binding]; other site 187303007953 homotetramer interface [polypeptide binding]; other site 187303007954 homodimer interface [polypeptide binding]; other site 187303007955 active site 187303007956 putative acyltransferase; Provisional; Region: PRK05790 187303007957 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 187303007958 dimer interface [polypeptide binding]; other site 187303007959 active site 187303007960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 187303007961 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 187303007962 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 187303007963 GTP-binding protein YchF; Reviewed; Region: PRK09601 187303007964 YchF GTPase; Region: YchF; cd01900 187303007965 G1 box; other site 187303007966 GTP/Mg2+ binding site [chemical binding]; other site 187303007967 Switch I region; other site 187303007968 G2 box; other site 187303007969 Switch II region; other site 187303007970 G3 box; other site 187303007971 G4 box; other site 187303007972 G5 box; other site 187303007973 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 187303007974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 187303007975 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303007976 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303007977 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 187303007978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 187303007979 Coenzyme A binding pocket [chemical binding]; other site 187303007980 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 187303007981 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 187303007982 dimer interface [polypeptide binding]; other site 187303007983 conserved gate region; other site 187303007984 ABC-ATPase subunit interface; other site 187303007985 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 187303007986 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 187303007987 Walker A/P-loop; other site 187303007988 ATP binding site [chemical binding]; other site 187303007989 Q-loop/lid; other site 187303007990 ABC transporter signature motif; other site 187303007991 Walker B; other site 187303007992 D-loop; other site 187303007993 H-loop/switch region; other site 187303007994 NMT1/THI5 like; Region: NMT1; pfam09084 187303007995 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 187303007996 Protein of unknown function, DUF488; Region: DUF488; pfam04343 187303007997 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 187303007998 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 187303007999 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 187303008000 active site 187303008001 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 187303008002 active site 187303008003 catalytic triad [active] 187303008004 oxyanion hole [active] 187303008005 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 187303008006 enoyl-CoA hydratase; Provisional; Region: PRK06127 187303008007 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 187303008008 substrate binding site [chemical binding]; other site 187303008009 oxyanion hole (OAH) forming residues; other site 187303008010 trimer interface [polypeptide binding]; other site 187303008011 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 187303008012 catalytic core [active] 187303008013 PemK-like protein; Region: PemK; pfam02452 187303008014 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 187303008015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 187303008016 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 187303008017 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; cl07055 187303008018 DnaA box-binding interface [nucleotide binding]; other site 187303008019 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 187303008020 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 187303008021 serine acetyltransferase; Provisional; Region: cysE; PRK11132 187303008022 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 187303008023 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 187303008024 trimer interface [polypeptide binding]; other site 187303008025 active site 187303008026 substrate binding site [chemical binding]; other site 187303008027 CoA binding site [chemical binding]; other site 187303008028 glutathione synthetase; Provisional; Region: PRK05246 187303008029 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 187303008030 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 187303008031 PII uridylyl-transferase; Provisional; Region: PRK05092 187303008032 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 187303008033 metal binding triad; other site 187303008034 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 187303008035 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 187303008036 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 187303008037 heat shock protein GrpE; Provisional; Region: PRK14141 187303008038 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 187303008039 dimer interface [polypeptide binding]; other site 187303008040 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 187303008041 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 187303008042 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 187303008043 oligomer interface [polypeptide binding]; other site 187303008044 metal binding site [ion binding]; metal-binding site 187303008045 metal binding site [ion binding]; metal-binding site 187303008046 putative Cl binding site [ion binding]; other site 187303008047 hydrophobic gate; other site 187303008048 periplasmic entrance; other site 187303008049 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 187303008050 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 187303008051 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 187303008052 protein binding site [polypeptide binding]; other site 187303008053 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 187303008054 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 187303008055 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 187303008056 active site 187303008057 phosphorylation site [posttranslational modification] 187303008058 intermolecular recognition site; other site 187303008059 dimerization interface [polypeptide binding]; other site 187303008060 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 187303008061 DNA binding site [nucleotide binding] 187303008062 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 187303008063 dimerization interface [polypeptide binding]; other site 187303008064 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 187303008065 dimer interface [polypeptide binding]; other site 187303008066 phosphorylation site [posttranslational modification] 187303008067 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 187303008068 ATP binding site [chemical binding]; other site 187303008069 Mg2+ binding site [ion binding]; other site 187303008070 G-X-G motif; other site 187303008071 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 187303008072 PAS fold; Region: PAS_3; pfam08447 187303008073 putative active site [active] 187303008074 heme pocket [chemical binding]; other site 187303008075 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 187303008076 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 187303008077 dimer interface [polypeptide binding]; other site 187303008078 phosphorylation site [posttranslational modification] 187303008079 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 187303008080 ATP binding site [chemical binding]; other site 187303008081 Mg2+ binding site [ion binding]; other site 187303008082 G-X-G motif; other site 187303008083 aminopeptidase N; Provisional; Region: pepN; PRK14015 187303008084 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 187303008085 active site 187303008086 Zn binding site [ion binding]; other site 187303008087 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 187303008088 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303008089 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 187303008090 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 187303008091 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 187303008092 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 187303008093 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 187303008094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 187303008095 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 187303008096 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 187303008097 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 187303008098 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 187303008099 active site 187303008100 SAM binding site [chemical binding]; other site 187303008101 homodimer interface [polypeptide binding]; other site 187303008102 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 187303008103 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 187303008104 active site 187303008105 putative homodimer interface [polypeptide binding]; other site 187303008106 SAM binding site [chemical binding]; other site 187303008107 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 187303008108 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 187303008109 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 187303008110 active site 187303008111 SAM binding site [chemical binding]; other site 187303008112 homodimer interface [polypeptide binding]; other site 187303008113 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 187303008114 active site 187303008115 SAM binding site [chemical binding]; other site 187303008116 homodimer interface [polypeptide binding]; other site 187303008117 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 187303008118 Precorrin-8X methylmutase; Region: CbiC; pfam02570 187303008119 precorrin-3B synthase; Region: CobG; TIGR02435 187303008120 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303008121 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 187303008122 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 187303008123 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 187303008124 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 187303008125 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 187303008126 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 187303008127 Probable cobalt transporter subunit (CbtA); Region: CbtA; pfam09490 187303008128 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 187303008129 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 187303008130 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 187303008131 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 187303008132 homodimer interface [polypeptide binding]; other site 187303008133 Walker A motif; other site 187303008134 ATP binding site [chemical binding]; other site 187303008135 hydroxycobalamin binding site [chemical binding]; other site 187303008136 Walker B motif; other site 187303008137 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 187303008138 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 187303008139 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 187303008140 EamA-like transporter family; Region: EamA; pfam00892 187303008141 EamA-like transporter family; Region: EamA; pfam00892 187303008142 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 187303008143 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 187303008144 rRNA interaction site [nucleotide binding]; other site 187303008145 S8 interaction site; other site 187303008146 putative laminin-1 binding site; other site 187303008147 Uncharacterized conserved protein [Function unknown]; Region: COG3743 187303008148 elongation factor Ts; Provisional; Region: tsf; PRK09377 187303008149 UBA/TS-N domain; Region: UBA; pfam00627 187303008150 Elongation factor TS; Region: EF_TS; pfam00889 187303008151 Elongation factor TS; Region: EF_TS; pfam00889 187303008152 oxidoreductase; Provisional; Region: PRK06128 187303008153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 187303008154 NAD(P) binding site [chemical binding]; other site 187303008155 active site 187303008156 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 187303008157 putative nucleotide binding site [chemical binding]; other site 187303008158 uridine monophosphate binding site [chemical binding]; other site 187303008159 homohexameric interface [polypeptide binding]; other site 187303008160 ribosome recycling factor; Reviewed; Region: frr; PRK00083 187303008161 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 187303008162 hinge region; other site 187303008163 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 187303008164 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 187303008165 catalytic residue [active] 187303008166 putative FPP diphosphate binding site; other site 187303008167 putative FPP binding hydrophobic cleft; other site 187303008168 dimer interface [polypeptide binding]; other site 187303008169 putative IPP diphosphate binding site; other site 187303008170 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 187303008171 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 187303008172 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 187303008173 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 187303008174 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 187303008175 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 187303008176 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 187303008177 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 187303008178 active site 187303008179 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 187303008180 protein binding site [polypeptide binding]; other site 187303008181 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 187303008182 putative substrate binding region [chemical binding]; other site 187303008183 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 187303008184 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 187303008185 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 187303008186 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 187303008187 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 187303008188 Surface antigen; Region: Bac_surface_Ag; pfam01103 187303008189 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 187303008190 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 187303008191 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 187303008192 trimer interface [polypeptide binding]; other site 187303008193 active site 187303008194 UDP-GlcNAc binding site [chemical binding]; other site 187303008195 lipid binding site [chemical binding]; lipid-binding site 187303008196 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 187303008197 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 187303008198 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 187303008199 putative trimer interface [polypeptide binding]; other site 187303008200 putative CoA binding site [chemical binding]; other site 187303008201 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 187303008202 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 187303008203 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 187303008204 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 187303008205 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 187303008206 dimer interface [polypeptide binding]; other site 187303008207 ssDNA binding site [nucleotide binding]; other site 187303008208 tetramer (dimer of dimers) interface [polypeptide binding]; other site 187303008209 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 187303008210 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 187303008211 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 187303008212 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 187303008213 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 187303008214 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 187303008215 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 187303008216 Clp amino terminal domain; Region: Clp_N; pfam02861 187303008217 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 187303008218 Walker A motif; other site 187303008219 ATP binding site [chemical binding]; other site 187303008220 Walker B motif; other site 187303008221 arginine finger; other site 187303008222 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 187303008223 Walker A motif; other site 187303008224 ATP binding site [chemical binding]; other site 187303008225 Walker B motif; other site 187303008226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 187303008227 Uncharacterized conserved protein [Function unknown]; Region: COG2127 187303008228 helicase 45; Provisional; Region: PTZ00424 187303008229 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 187303008230 ATP binding site [chemical binding]; other site 187303008231 Mg++ binding site [ion binding]; other site 187303008232 motif III; other site 187303008233 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 187303008234 nucleotide binding region [chemical binding]; other site 187303008235 ATP-binding site [chemical binding]; other site 187303008236 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 187303008237 HIT family signature motif; other site 187303008238 catalytic residue [active] 187303008239 prephenate dehydratase; Provisional; Region: PRK11899 187303008240 Prephenate dehydratase; Region: PDT; pfam00800 187303008241 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 187303008242 putative L-Phe binding site [chemical binding]; other site 187303008243 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 187303008244 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 187303008245 active site 187303008246 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 187303008247 ribonuclease R; Region: RNase_R; TIGR02063 187303008248 RNB domain; Region: RNB; pfam00773 187303008249 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 187303008250 RNA binding site [nucleotide binding]; other site 187303008251 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 187303008252 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 187303008253 active site 187303008254 interdomain interaction site; other site 187303008255 putative metal-binding site [ion binding]; other site 187303008256 nucleotide binding site [chemical binding]; other site 187303008257 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 187303008258 domain I; other site 187303008259 DNA binding groove [nucleotide binding] 187303008260 phosphate binding site [ion binding]; other site 187303008261 domain II; other site 187303008262 domain III; other site 187303008263 nucleotide binding site [chemical binding]; other site 187303008264 catalytic site [active] 187303008265 domain IV; other site 187303008266 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 187303008267 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 187303008268 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 187303008269 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 187303008270 Cupin domain; Region: Cupin_2; cl17218 187303008271 AsmA family; Region: AsmA; pfam05170 187303008272 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 187303008273 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 187303008274 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 187303008275 active site 187303008276 phosphorylation site [posttranslational modification] 187303008277 dimerization interface [polypeptide binding]; other site 187303008278 Protein of unknown function (DUF423); Region: DUF423; pfam04241 187303008279 Peptidase family M48; Region: Peptidase_M48; pfam01435 187303008280 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 187303008281 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 187303008282 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 187303008283 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 187303008284 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 187303008285 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 187303008286 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 187303008287 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 187303008288 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 187303008289 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 187303008290 Yip1 domain; Region: Yip1; pfam04893 187303008291 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 187303008292 Domain of unknown function (DUF4135); Region: DUF4135; pfam13575 187303008293 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 187303008294 active site 187303008295 zinc binding site [ion binding]; other site 187303008296 ABC-2 type transporter; Region: ABC2_membrane; cl17235 187303008297 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 187303008298 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 187303008299 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 187303008300 Walker A/P-loop; other site 187303008301 ATP binding site [chemical binding]; other site 187303008302 Q-loop/lid; other site 187303008303 ABC transporter signature motif; other site 187303008304 Walker B; other site 187303008305 D-loop; other site 187303008306 H-loop/switch region; other site 187303008307 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 187303008308 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303008309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303008310 Walker A/P-loop; other site 187303008311 ATP binding site [chemical binding]; other site 187303008312 Q-loop/lid; other site 187303008313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303008314 ABC transporter signature motif; other site 187303008315 Walker B; other site 187303008316 ABC transporter; Region: ABC_tran_2; pfam12848 187303008317 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303008318 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 187303008319 active site 187303008320 NTP binding site [chemical binding]; other site 187303008321 metal binding triad [ion binding]; metal-binding site 187303008322 antibiotic binding site [chemical binding]; other site 187303008323 Predicted acetyltransferase [General function prediction only]; Region: COG2388 187303008324 prolyl-tRNA synthetase; Provisional; Region: PRK12325 187303008325 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 187303008326 dimer interface [polypeptide binding]; other site 187303008327 motif 1; other site 187303008328 active site 187303008329 motif 2; other site 187303008330 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 187303008331 active site 187303008332 motif 3; other site 187303008333 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 187303008334 anticodon binding site; other site 187303008335 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 187303008336 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 187303008337 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 187303008338 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 187303008339 Walker A/P-loop; other site 187303008340 ATP binding site [chemical binding]; other site 187303008341 Q-loop/lid; other site 187303008342 ABC transporter signature motif; other site 187303008343 Walker B; other site 187303008344 D-loop; other site 187303008345 H-loop/switch region; other site 187303008346 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 187303008347 substrate binding site [chemical binding]; other site 187303008348 oxyanion hole (OAH) forming residues; other site 187303008349 trimer interface [polypeptide binding]; other site 187303008350 PAS fold; Region: PAS_7; pfam12860 187303008351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 187303008352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187303008353 metal binding site [ion binding]; metal-binding site 187303008354 active site 187303008355 I-site; other site 187303008356 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 187303008357 enoyl-CoA hydratase; Validated; Region: PRK08788 187303008358 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 187303008359 substrate binding site [chemical binding]; other site 187303008360 oxyanion hole (OAH) forming residues; other site 187303008361 trimer interface [polypeptide binding]; other site 187303008362 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 187303008363 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 187303008364 Multicopper oxidase; Region: Cu-oxidase; pfam00394 187303008365 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 187303008366 trigger factor; Provisional; Region: tig; PRK01490 187303008367 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 187303008368 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 187303008369 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 187303008370 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 187303008371 oligomer interface [polypeptide binding]; other site 187303008372 active site residues [active] 187303008373 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 187303008374 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187303008375 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 187303008376 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 187303008377 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 187303008378 carboxyltransferase (CT) interaction site; other site 187303008379 biotinylation site [posttranslational modification]; other site 187303008380 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 187303008381 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 187303008382 homotetrameric interface [polypeptide binding]; other site 187303008383 putative active site [active] 187303008384 metal binding site [ion binding]; metal-binding site 187303008385 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 187303008386 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 187303008387 Sulfate transporter family; Region: Sulfate_transp; pfam00916 187303008388 Sulfate transporter family; Region: Sulfate_transp; pfam00916 187303008389 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 187303008390 anti sigma factor interaction site; other site 187303008391 regulatory phosphorylation site [posttranslational modification]; other site 187303008392 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 187303008393 active site clefts [active] 187303008394 zinc binding site [ion binding]; other site 187303008395 dimer interface [polypeptide binding]; other site 187303008396 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 187303008397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303008398 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 187303008399 dimerization interface [polypeptide binding]; other site 187303008400 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 187303008401 ATP-grasp domain; Region: ATP-grasp; pfam02222 187303008402 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 187303008403 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 187303008404 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 187303008405 hypothetical protein; Validated; Region: PRK00029 187303008406 Uncharacterized conserved protein [Function unknown]; Region: COG0397 187303008407 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 187303008408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 187303008409 DNA-binding site [nucleotide binding]; DNA binding site 187303008410 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 187303008411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303008412 homodimer interface [polypeptide binding]; other site 187303008413 catalytic residue [active] 187303008414 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 187303008415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 187303008416 putative substrate translocation pore; other site 187303008417 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303008418 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 187303008419 Iron-sulfur protein interface; other site 187303008420 proximal quinone binding site [chemical binding]; other site 187303008421 SdhD (CybS) interface [polypeptide binding]; other site 187303008422 proximal heme binding site [chemical binding]; other site 187303008423 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 187303008424 putative SdhC subunit interface [polypeptide binding]; other site 187303008425 putative proximal heme binding site [chemical binding]; other site 187303008426 putative Iron-sulfur protein interface [polypeptide binding]; other site 187303008427 putative proximal quinone binding site; other site 187303008428 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 187303008429 L-aspartate oxidase; Provisional; Region: PRK06175 187303008430 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 187303008431 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 187303008432 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 187303008433 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 187303008434 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 187303008435 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 187303008436 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187303008437 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187303008438 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 187303008439 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 187303008440 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 187303008441 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 187303008442 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 187303008443 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 187303008444 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 187303008445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 187303008446 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 187303008447 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 187303008448 GIY-YIG motif/motif A; other site 187303008449 active site 187303008450 catalytic site [active] 187303008451 putative DNA binding site [nucleotide binding]; other site 187303008452 metal binding site [ion binding]; metal-binding site 187303008453 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 187303008454 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 187303008455 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 187303008456 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303008457 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 187303008458 putative C-terminal domain interface [polypeptide binding]; other site 187303008459 putative GSH binding site (G-site) [chemical binding]; other site 187303008460 putative dimer interface [polypeptide binding]; other site 187303008461 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 187303008462 dimer interface [polypeptide binding]; other site 187303008463 N-terminal domain interface [polypeptide binding]; other site 187303008464 putative substrate binding pocket (H-site) [chemical binding]; other site 187303008465 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 187303008466 Transposase; Region: DEDD_Tnp_IS110; pfam01548 187303008467 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 187303008468 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 187303008469 ligand binding site [chemical binding]; other site 187303008470 active site 187303008471 UGI interface [polypeptide binding]; other site 187303008472 catalytic site [active] 187303008473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 187303008474 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 187303008475 translocation protein TolB; Provisional; Region: tolB; PRK05137 187303008476 TolB amino-terminal domain; Region: TolB_N; pfam04052 187303008477 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187303008478 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187303008479 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187303008480 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 187303008481 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 187303008482 TolR protein; Region: tolR; TIGR02801 187303008483 TolQ protein; Region: tolQ; TIGR02796 187303008484 Fatty acid desaturase; Region: FA_desaturase; pfam00487 187303008485 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 187303008486 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 187303008487 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 187303008488 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 187303008489 active site 187303008490 metal binding site [ion binding]; metal-binding site 187303008491 hypothetical protein; Provisional; Region: PRK14679 187303008492 Predicted methyltransferases [General function prediction only]; Region: COG0313 187303008493 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 187303008494 putative SAM binding site [chemical binding]; other site 187303008495 putative homodimer interface [polypeptide binding]; other site 187303008496 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 187303008497 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 187303008498 putative ligand binding site [chemical binding]; other site 187303008499 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 187303008500 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 187303008501 putative active site [active] 187303008502 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 187303008503 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303008504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 187303008505 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 187303008506 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 187303008507 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 187303008508 GIY-YIG motif/motif A; other site 187303008509 putative active site [active] 187303008510 putative metal binding site [ion binding]; other site 187303008511 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 187303008512 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 187303008513 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 187303008514 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 187303008515 active site 187303008516 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 187303008517 TSCPD domain; Region: TSCPD; pfam12637 187303008518 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 187303008519 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 187303008520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 187303008521 putative acyl-acceptor binding pocket; other site 187303008522 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 187303008523 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 187303008524 putative hydrophobic ligand binding site [chemical binding]; other site 187303008525 protein interface [polypeptide binding]; other site 187303008526 gate; other site 187303008527 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 187303008528 putative hydrophobic ligand binding site [chemical binding]; other site 187303008529 protein interface [polypeptide binding]; other site 187303008530 gate; other site 187303008531 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 187303008532 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303008533 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303008534 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303008535 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303008536 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 187303008537 hypothetical protein; Provisional; Region: PRK06185 187303008538 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 187303008539 MAPEG family; Region: MAPEG; cl09190 187303008540 Predicted transcriptional regulators [Transcription]; Region: COG1733 187303008541 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 187303008542 NADH dehydrogenase; Validated; Region: PRK08183 187303008543 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 187303008544 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 187303008545 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 187303008546 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 187303008547 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 187303008548 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 187303008549 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 187303008550 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 187303008551 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 187303008552 carboxyltransferase (CT) interaction site; other site 187303008553 biotinylation site [posttranslational modification]; other site 187303008554 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 187303008555 Dehydroquinase class II; Region: DHquinase_II; pfam01220 187303008556 trimer interface [polypeptide binding]; other site 187303008557 active site 187303008558 dimer interface [polypeptide binding]; other site 187303008559 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 187303008560 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 187303008561 catalytic residues [active] 187303008562 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 187303008563 OstA-like protein; Region: OstA; cl00844 187303008564 Organic solvent tolerance protein; Region: OstA_C; pfam04453 187303008565 Predicted permeases [General function prediction only]; Region: COG0795 187303008566 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 187303008567 multifunctional aminopeptidase A; Provisional; Region: PRK00913 187303008568 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 187303008569 interface (dimer of trimers) [polypeptide binding]; other site 187303008570 Substrate-binding/catalytic site; other site 187303008571 Zn-binding sites [ion binding]; other site 187303008572 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 187303008573 BON domain; Region: BON; pfam04972 187303008574 DNA polymerase III subunit chi; Validated; Region: PRK05728 187303008575 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 187303008576 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 187303008577 S-adenosylmethionine binding site [chemical binding]; other site 187303008578 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 187303008579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303008580 Walker A/P-loop; other site 187303008581 ATP binding site [chemical binding]; other site 187303008582 Q-loop/lid; other site 187303008583 ABC transporter signature motif; other site 187303008584 Walker B; other site 187303008585 D-loop; other site 187303008586 H-loop/switch region; other site 187303008587 TOBE domain; Region: TOBE_2; pfam08402 187303008588 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 187303008589 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 187303008590 dimer interface [polypeptide binding]; other site 187303008591 conserved gate region; other site 187303008592 putative PBP binding loops; other site 187303008593 ABC-ATPase subunit interface; other site 187303008594 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 187303008595 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 187303008596 dimer interface [polypeptide binding]; other site 187303008597 conserved gate region; other site 187303008598 putative PBP binding loops; other site 187303008599 ABC-ATPase subunit interface; other site 187303008600 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 187303008601 Domain of unknown function DUF20; Region: UPF0118; pfam01594 187303008602 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303008603 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 187303008604 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 187303008605 polyphosphate kinase; Provisional; Region: PRK05443 187303008606 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 187303008607 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 187303008608 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 187303008609 putative domain interface [polypeptide binding]; other site 187303008610 putative active site [active] 187303008611 catalytic site [active] 187303008612 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 187303008613 putative domain interface [polypeptide binding]; other site 187303008614 putative active site [active] 187303008615 catalytic site [active] 187303008616 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 187303008617 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 187303008618 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 187303008619 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 187303008620 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 187303008621 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 187303008622 catalytic site [active] 187303008623 putative active site [active] 187303008624 putative substrate binding site [chemical binding]; other site 187303008625 HRDC domain; Region: HRDC; pfam00570 187303008626 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 187303008627 binding surface 187303008628 TPR motif; other site 187303008629 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 187303008630 TPR motif; other site 187303008631 binding surface 187303008632 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 187303008633 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303008634 catalytic triad [active] 187303008635 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 187303008636 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 187303008637 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 187303008638 active site 187303008639 HIGH motif; other site 187303008640 dimer interface [polypeptide binding]; other site 187303008641 KMSKS motif; other site 187303008642 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 187303008643 RNA binding surface [nucleotide binding]; other site 187303008644 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 187303008645 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 187303008646 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 187303008647 putative active site [active] 187303008648 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 187303008649 EcsC protein family; Region: EcsC; pfam12787 187303008650 Protein of unknown function (DUF992); Region: DUF992; pfam06186 187303008651 short chain dehydrogenase; Provisional; Region: PRK08703 187303008652 classical (c) SDRs; Region: SDR_c; cd05233 187303008653 NAD(P) binding site [chemical binding]; other site 187303008654 active site 187303008655 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 187303008656 oligomeric interface; other site 187303008657 putative active site [active] 187303008658 homodimer interface [polypeptide binding]; other site 187303008659 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 187303008660 amidophosphoribosyltransferase; Provisional; Region: PRK09123 187303008661 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 187303008662 active site 187303008663 tetramer interface [polypeptide binding]; other site 187303008664 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303008665 active site 187303008666 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 187303008667 Colicin V production protein; Region: Colicin_V; pfam02674 187303008668 DNA repair protein RadA; Provisional; Region: PRK11823 187303008669 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 187303008670 Walker A motif; other site 187303008671 ATP binding site [chemical binding]; other site 187303008672 Walker B motif; other site 187303008673 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 187303008674 IHF dimer interface [polypeptide binding]; other site 187303008675 IHF - DNA interface [nucleotide binding]; other site 187303008676 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 187303008677 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 187303008678 dimer interface [polypeptide binding]; other site 187303008679 active site 187303008680 CoA binding pocket [chemical binding]; other site 187303008681 putative phosphate acyltransferase; Provisional; Region: PRK05331 187303008682 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 187303008683 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 187303008684 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 187303008685 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303008686 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303008687 catalytic residue [active] 187303008688 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 187303008689 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 187303008690 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 187303008691 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 187303008692 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 187303008693 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 187303008694 putative substrate translocation pore; other site 187303008695 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 187303008696 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 187303008697 motif 1; other site 187303008698 active site 187303008699 motif 2; other site 187303008700 motif 3; other site 187303008701 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 187303008702 DHHA1 domain; Region: DHHA1; pfam02272 187303008703 Ion transport protein; Region: Ion_trans; pfam00520 187303008704 Ion channel; Region: Ion_trans_2; pfam07885 187303008705 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 187303008706 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 187303008707 ligand binding site [chemical binding]; other site 187303008708 flexible hinge region; other site 187303008709 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 187303008710 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 187303008711 gamma subunit interface [polypeptide binding]; other site 187303008712 epsilon subunit interface [polypeptide binding]; other site 187303008713 LBP interface [polypeptide binding]; other site 187303008714 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 187303008715 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 187303008716 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 187303008717 alpha subunit interaction interface [polypeptide binding]; other site 187303008718 Walker A motif; other site 187303008719 ATP binding site [chemical binding]; other site 187303008720 Walker B motif; other site 187303008721 inhibitor binding site; inhibition site 187303008722 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 187303008723 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 187303008724 core domain interface [polypeptide binding]; other site 187303008725 delta subunit interface [polypeptide binding]; other site 187303008726 epsilon subunit interface [polypeptide binding]; other site 187303008727 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 187303008728 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 187303008729 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 187303008730 beta subunit interaction interface [polypeptide binding]; other site 187303008731 Walker A motif; other site 187303008732 ATP binding site [chemical binding]; other site 187303008733 Walker B motif; other site 187303008734 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 187303008735 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 187303008736 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 187303008737 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 187303008738 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 187303008739 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 187303008740 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 187303008741 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 187303008742 Ligand Binding Site [chemical binding]; other site 187303008743 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 187303008744 Cytochrome c; Region: Cytochrom_C; pfam00034 187303008745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 187303008746 MOSC domain; Region: MOSC; pfam03473 187303008747 Predicted membrane protein [Function unknown]; Region: COG3223 187303008748 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 187303008749 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 187303008750 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 187303008751 active site 187303008752 substrate binding site [chemical binding]; other site 187303008753 coenzyme B12 binding site [chemical binding]; other site 187303008754 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 187303008755 B12 binding site [chemical binding]; other site 187303008756 cobalt ligand [ion binding]; other site 187303008757 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 187303008758 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 187303008759 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 187303008760 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 187303008761 ATP binding site [chemical binding]; other site 187303008762 putative Mg++ binding site [ion binding]; other site 187303008763 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 187303008764 nucleotide binding region [chemical binding]; other site 187303008765 ATP-binding site [chemical binding]; other site 187303008766 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 187303008767 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 187303008768 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 187303008769 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 187303008770 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 187303008771 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 187303008772 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 187303008773 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 187303008774 Uncharacterized conserved protein [Function unknown]; Region: COG1565 187303008775 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 187303008776 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 187303008777 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 187303008778 substrate binding site [chemical binding]; other site 187303008779 oxyanion hole (OAH) forming residues; other site 187303008780 trimer interface [polypeptide binding]; other site 187303008781 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 187303008782 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 187303008783 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 187303008784 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 187303008785 dimer interface [polypeptide binding]; other site 187303008786 active site 187303008787 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 187303008788 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 187303008789 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 187303008790 FAD binding site [chemical binding]; other site 187303008791 substrate binding site [chemical binding]; other site 187303008792 catalytic residues [active] 187303008793 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 187303008794 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 187303008795 Sel1-like repeats; Region: SEL1; smart00671 187303008796 Sel1-like repeats; Region: SEL1; smart00671 187303008797 Transglycosylase SLT domain; Region: SLT_2; pfam13406 187303008798 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303008799 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303008800 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303008801 Domain of unknown function DUF20; Region: UPF0118; pfam01594 187303008802 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 187303008803 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 187303008804 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 187303008805 catalytic site [active] 187303008806 putative active site [active] 187303008807 putative substrate binding site [chemical binding]; other site 187303008808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 187303008809 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 187303008810 OstA-like protein; Region: OstA; pfam03968 187303008811 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 187303008812 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303008813 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303008814 catalytic residue [active] 187303008815 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 187303008816 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 187303008817 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 187303008818 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 187303008819 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 187303008820 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 187303008821 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 187303008822 putative active site [active] 187303008823 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 187303008824 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 187303008825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303008826 Walker A/P-loop; other site 187303008827 ATP binding site [chemical binding]; other site 187303008828 Q-loop/lid; other site 187303008829 ABC transporter signature motif; other site 187303008830 Walker B; other site 187303008831 D-loop; other site 187303008832 H-loop/switch region; other site 187303008833 ABC transporter; Region: ABC_tran_2; pfam12848 187303008834 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 187303008835 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 187303008836 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 187303008837 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 187303008838 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 187303008839 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 187303008840 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 187303008841 Repair protein; Region: Repair_PSII; cl01535 187303008842 Repair protein; Region: Repair_PSII; pfam04536 187303008843 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 187303008844 metal binding site 2 [ion binding]; metal-binding site 187303008845 putative DNA binding helix; other site 187303008846 metal binding site 1 [ion binding]; metal-binding site 187303008847 dimer interface [polypeptide binding]; other site 187303008848 structural Zn2+ binding site [ion binding]; other site 187303008849 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; cl10029 187303008850 argininosuccinate synthase; Provisional; Region: PRK13820 187303008851 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 187303008852 ANP binding site [chemical binding]; other site 187303008853 Substrate Binding Site II [chemical binding]; other site 187303008854 Substrate Binding Site I [chemical binding]; other site 187303008855 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 187303008856 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 187303008857 FeS/SAM binding site; other site 187303008858 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 187303008859 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 187303008860 Mechanosensitive ion channel; Region: MS_channel; pfam00924 187303008861 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 187303008862 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 187303008863 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 187303008864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 187303008865 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 187303008866 dimer interface [polypeptide binding]; other site 187303008867 phosphorylation site [posttranslational modification] 187303008868 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 187303008869 ATP binding site [chemical binding]; other site 187303008870 Mg2+ binding site [ion binding]; other site 187303008871 G-X-G motif; other site 187303008872 GTP-binding protein LepA; Provisional; Region: PRK05433 187303008873 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 187303008874 G1 box; other site 187303008875 putative GEF interaction site [polypeptide binding]; other site 187303008876 GTP/Mg2+ binding site [chemical binding]; other site 187303008877 Switch I region; other site 187303008878 G2 box; other site 187303008879 G3 box; other site 187303008880 Switch II region; other site 187303008881 G4 box; other site 187303008882 G5 box; other site 187303008883 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 187303008884 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 187303008885 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 187303008886 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 187303008887 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 187303008888 Methyltransferase domain; Region: Methyltransf_31; pfam13847 187303008889 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 187303008890 S-adenosylmethionine binding site [chemical binding]; other site 187303008891 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 187303008892 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 187303008893 putative catalytic cysteine [active] 187303008894 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 187303008895 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 187303008896 active site 187303008897 (T/H)XGH motif; other site 187303008898 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 187303008899 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 187303008900 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 187303008901 FeS/SAM binding site; other site 187303008902 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 187303008903 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 187303008904 dimer interface [polypeptide binding]; other site 187303008905 active site 187303008906 CoA binding pocket [chemical binding]; other site 187303008907 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 187303008908 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 187303008909 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 187303008910 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 187303008911 dimer interface [polypeptide binding]; other site 187303008912 conserved gate region; other site 187303008913 putative PBP binding loops; other site 187303008914 ABC-ATPase subunit interface; other site 187303008915 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 187303008916 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 187303008917 dimer interface [polypeptide binding]; other site 187303008918 conserved gate region; other site 187303008919 putative PBP binding loops; other site 187303008920 ABC-ATPase subunit interface; other site 187303008921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303008922 ABC transporter; Region: ABC_tran; pfam00005 187303008923 Q-loop/lid; other site 187303008924 ABC transporter signature motif; other site 187303008925 Walker B; other site 187303008926 D-loop; other site 187303008927 H-loop/switch region; other site 187303008928 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 187303008929 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 187303008930 S-adenosylmethionine binding site [chemical binding]; other site 187303008931 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 187303008932 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 187303008933 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 187303008934 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 187303008935 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 187303008936 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 187303008937 nickel binding site [ion binding]; other site 187303008938 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 187303008939 Acylphosphatase; Region: Acylphosphatase; pfam00708 187303008940 HypF finger; Region: zf-HYPF; pfam07503 187303008941 HypF finger; Region: zf-HYPF; pfam07503 187303008942 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 187303008943 HupF/HypC family; Region: HupF_HypC; cl00394 187303008944 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 187303008945 dimer interface [polypeptide binding]; other site 187303008946 active site 187303008947 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 187303008948 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 187303008949 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 187303008950 dimerization interface [polypeptide binding]; other site 187303008951 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 187303008952 ATP binding site [chemical binding]; other site 187303008953 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 187303008954 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 187303008955 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 187303008956 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 187303008957 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 187303008958 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 187303008959 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 187303008960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 187303008961 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 187303008962 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 187303008963 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 187303008964 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 187303008965 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 187303008966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 187303008967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 187303008968 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 187303008969 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 187303008970 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 187303008971 phosphate binding site [ion binding]; other site 187303008972 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 187303008973 active site clefts [active] 187303008974 zinc binding site [ion binding]; other site 187303008975 dimer interface [polypeptide binding]; other site 187303008976 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 187303008977 amphipathic channel; other site 187303008978 Asn-Pro-Ala signature motifs; other site 187303008979 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 187303008980 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 187303008981 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 187303008982 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 187303008983 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 187303008984 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 187303008985 glutathione s-transferase; Provisional; Region: PTZ00057 187303008986 GSH binding site (G-site) [chemical binding]; other site 187303008987 C-terminal domain interface [polypeptide binding]; other site 187303008988 dimer interface [polypeptide binding]; other site 187303008989 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 187303008990 dimer interface [polypeptide binding]; other site 187303008991 N-terminal domain interface [polypeptide binding]; other site 187303008992 substrate binding pocket (H-site) [chemical binding]; other site 187303008993 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 187303008994 Ligand binding site; other site 187303008995 metal-binding site 187303008996 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 187303008997 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 187303008998 XdhC Rossmann domain; Region: XdhC_C; pfam13478 187303008999 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 187303009000 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 187303009001 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 187303009002 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 187303009003 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 187303009004 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 187303009005 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 187303009006 catalytic loop [active] 187303009007 iron binding site [ion binding]; other site 187303009008 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 187303009009 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 187303009010 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 187303009011 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 187303009012 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 187303009013 folate binding site [chemical binding]; other site 187303009014 NADP+ binding site [chemical binding]; other site 187303009015 thymidylate synthase; Reviewed; Region: thyA; PRK01827 187303009016 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 187303009017 dimerization interface [polypeptide binding]; other site 187303009018 active site 187303009019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 187303009020 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 187303009021 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 187303009022 ATP binding site [chemical binding]; other site 187303009023 putative Mg++ binding site [ion binding]; other site 187303009024 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 187303009025 nucleotide binding region [chemical binding]; other site 187303009026 ATP-binding site [chemical binding]; other site 187303009027 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 187303009028 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 187303009029 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 187303009030 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 187303009031 active site 187303009032 substrate binding site [chemical binding]; other site 187303009033 metal binding site [ion binding]; metal-binding site 187303009034 cobalamin synthase; Reviewed; Region: cobS; PRK00235 187303009035 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 187303009036 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 187303009037 FMN binding site [chemical binding]; other site 187303009038 active site 187303009039 catalytic residues [active] 187303009040 substrate binding site [chemical binding]; other site 187303009041 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 187303009042 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 187303009043 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 187303009044 NAD binding site [chemical binding]; other site 187303009045 dimerization interface [polypeptide binding]; other site 187303009046 product binding site; other site 187303009047 substrate binding site [chemical binding]; other site 187303009048 zinc binding site [ion binding]; other site 187303009049 catalytic residues [active] 187303009050 hypothetical protein; Provisional; Region: PRK02853 187303009051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303009052 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 187303009053 Low molecular weight phosphatase family; Region: LMWPc; cd00115 187303009054 active site 187303009055 Amidase; Region: Amidase; cl11426 187303009056 indole-3-acetamide amidohydrolase; Region: PLN02722 187303009057 Predicted integral membrane protein [Function unknown]; Region: COG5528 187303009058 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 187303009059 thioester reductase domain; Region: Thioester-redct; TIGR01746 187303009060 putative NAD(P) binding site [chemical binding]; other site 187303009061 active site 187303009062 DoxX-like family; Region: DoxX_3; pfam13781 187303009063 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 187303009064 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 187303009065 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 187303009066 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 187303009067 [2Fe-2S] cluster binding site [ion binding]; other site 187303009068 thiamine pyrophosphate protein; Provisional; Region: PRK08273 187303009069 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 187303009070 PYR/PP interface [polypeptide binding]; other site 187303009071 dimer interface [polypeptide binding]; other site 187303009072 tetramer interface [polypeptide binding]; other site 187303009073 TPP binding site [chemical binding]; other site 187303009074 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 187303009075 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 187303009076 TPP-binding site [chemical binding]; other site 187303009077 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 187303009078 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 187303009079 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 187303009080 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 187303009081 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 187303009082 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 187303009083 putative NAD(P) binding site [chemical binding]; other site 187303009084 active site 187303009085 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 187303009086 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 187303009087 phosphate binding site [ion binding]; other site 187303009088 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 187303009089 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 187303009090 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 187303009091 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303009092 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 187303009093 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 187303009094 DNA binding residues [nucleotide binding] 187303009095 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 187303009096 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 187303009097 TIGR04222 domain; Region: near_uncomplex 187303009098 hypothetical protein; Provisional; Region: PRK05409 187303009099 Cupin domain; Region: Cupin_2; cl17218 187303009100 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 187303009101 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 187303009102 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 187303009103 FeS/SAM binding site; other site 187303009104 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 187303009105 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 187303009106 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 187303009107 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 187303009108 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 187303009109 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 187303009110 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 187303009111 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 187303009112 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 187303009113 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 187303009114 dimer interface [polypeptide binding]; other site 187303009115 putative functional site; other site 187303009116 putative MPT binding site; other site 187303009117 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 187303009118 trimer interface [polypeptide binding]; other site 187303009119 dimer interface [polypeptide binding]; other site 187303009120 putative active site [active] 187303009121 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 187303009122 active site 187303009123 ribulose/triose binding site [chemical binding]; other site 187303009124 phosphate binding site [ion binding]; other site 187303009125 substrate (anthranilate) binding pocket [chemical binding]; other site 187303009126 product (indole) binding pocket [chemical binding]; other site 187303009127 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 187303009128 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 187303009129 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 187303009130 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 187303009131 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 187303009132 glutamine binding [chemical binding]; other site 187303009133 catalytic triad [active] 187303009134 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 187303009135 Peptidase family M50; Region: Peptidase_M50; pfam02163 187303009136 active site 187303009137 putative substrate binding region [chemical binding]; other site 187303009138 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 187303009139 Transcriptional regulators [Transcription]; Region: MarR; COG1846 187303009140 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 187303009141 anthranilate synthase component I; Provisional; Region: PRK13573 187303009142 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 187303009143 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 187303009144 SurA N-terminal domain; Region: SurA_N_3; cl07813 187303009145 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 187303009146 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 187303009147 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 187303009148 diiron binding motif [ion binding]; other site 187303009149 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 187303009150 catalytic residues [active] 187303009151 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 187303009152 Sodium Bile acid symporter family; Region: SBF; cl17470 187303009153 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 187303009154 Low molecular weight phosphatase family; Region: LMWPc; cd00115 187303009155 active site 187303009156 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 187303009157 dimerization interface [polypeptide binding]; other site 187303009158 putative DNA binding site [nucleotide binding]; other site 187303009159 putative Zn2+ binding site [ion binding]; other site 187303009160 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 187303009161 triosephosphate isomerase; Provisional; Region: PRK14565 187303009162 substrate binding site [chemical binding]; other site 187303009163 dimer interface [polypeptide binding]; other site 187303009164 catalytic triad [active] 187303009165 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 187303009166 active site 187303009167 multimer interface [polypeptide binding]; other site 187303009168 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 187303009169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 187303009170 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 187303009171 putative N-terminal domain interface [polypeptide binding]; other site 187303009172 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 187303009173 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 187303009174 active site 187303009175 cosubstrate binding site; other site 187303009176 substrate binding site [chemical binding]; other site 187303009177 catalytic site [active] 187303009178 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 187303009179 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 187303009180 dimerization interface [polypeptide binding]; other site 187303009181 putative ATP binding site [chemical binding]; other site 187303009182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 187303009183 acyl-CoA synthetase; Validated; Region: PRK08162 187303009184 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 187303009185 acyl-activating enzyme (AAE) consensus motif; other site 187303009186 putative active site [active] 187303009187 AMP binding site [chemical binding]; other site 187303009188 putative CoA binding site [chemical binding]; other site 187303009189 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 187303009190 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 187303009191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303009192 Walker A/P-loop; other site 187303009193 ATP binding site [chemical binding]; other site 187303009194 Q-loop/lid; other site 187303009195 ABC transporter signature motif; other site 187303009196 Walker B; other site 187303009197 D-loop; other site 187303009198 H-loop/switch region; other site 187303009199 HAMP domain; Region: HAMP; pfam00672 187303009200 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 187303009201 cyclase homology domain; Region: CHD; cd07302 187303009202 nucleotidyl binding site; other site 187303009203 metal binding site [ion binding]; metal-binding site 187303009204 dimer interface [polypeptide binding]; other site 187303009205 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 187303009206 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 187303009207 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 187303009208 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 187303009209 active site 187303009210 Cytochrome c [Energy production and conversion]; Region: COG3258 187303009211 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 187303009212 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 187303009213 active site 187303009214 metal binding site [ion binding]; metal-binding site 187303009215 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 187303009216 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 187303009217 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 187303009218 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; pfam04896 187303009219 Ammonia monooxygenase; Region: AMO; pfam02461 187303009220 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 187303009221 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 187303009222 CopC domain; Region: CopC; pfam04234 187303009223 Copper resistance protein D; Region: CopD; pfam05425 187303009224 Cytochrome c; Region: Cytochrom_C; pfam00034 187303009225 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 187303009226 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 187303009227 Protein of unknown function (DUF461); Region: DUF461; pfam04314 187303009228 aspartate aminotransferase; Provisional; Region: PRK05764 187303009229 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 187303009230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 187303009231 homodimer interface [polypeptide binding]; other site 187303009232 catalytic residue [active] 187303009233 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 187303009234 putative hydrophobic ligand binding site [chemical binding]; other site 187303009235 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 187303009236 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 187303009237 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 187303009238 FOG: CBS domain [General function prediction only]; Region: COG0517 187303009239 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 187303009240 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 187303009241 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 187303009242 putative catalytic site [active] 187303009243 putative phosphate binding site [ion binding]; other site 187303009244 active site 187303009245 metal binding site A [ion binding]; metal-binding site 187303009246 DNA binding site [nucleotide binding] 187303009247 putative AP binding site [nucleotide binding]; other site 187303009248 putative metal binding site B [ion binding]; other site 187303009249 hypothetical protein; Provisional; Region: PRK05415 187303009250 Domain of unknown function (DUF697); Region: DUF697; cl12064 187303009251 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 187303009252 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 187303009253 DNA protecting protein DprA; Region: dprA; TIGR00732 187303009254 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 187303009255 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 187303009256 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 187303009257 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 187303009258 Chorismate mutase type II; Region: CM_2; smart00830 187303009259 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 187303009260 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 187303009261 GatB domain; Region: GatB_Yqey; smart00845 187303009262 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 187303009263 dimer interface [polypeptide binding]; other site 187303009264 allosteric magnesium binding site [ion binding]; other site 187303009265 active site 187303009266 aspartate-rich active site metal binding site; other site 187303009267 Schiff base residues; other site 187303009268 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 187303009269 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 187303009270 pyruvate kinase; Provisional; Region: PRK06247 187303009271 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 187303009272 domain interfaces; other site 187303009273 active site 187303009274 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303009275 DNA-binding site [nucleotide binding]; DNA binding site 187303009276 RNA-binding motif; other site 187303009277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 187303009278 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 187303009279 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 187303009280 active site 187303009281 dimerization interface [polypeptide binding]; other site 187303009282 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 187303009283 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 187303009284 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 187303009285 Response regulator receiver domain; Region: Response_reg; pfam00072 187303009286 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 187303009287 active site 187303009288 phosphorylation site [posttranslational modification] 187303009289 intermolecular recognition site; other site 187303009290 dimerization interface [polypeptide binding]; other site 187303009291 N-formylglutamate amidohydrolase; Region: FGase; cl01522 187303009292 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 187303009293 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 187303009294 active site 187303009295 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 187303009296 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 187303009297 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 187303009298 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 187303009299 catalytic residues [active] 187303009300 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 187303009301 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 187303009302 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 187303009303 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 187303009304 DNA binding residues [nucleotide binding] 187303009305 dimerization interface [polypeptide binding]; other site 187303009306 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 187303009307 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 187303009308 putative dimer interface [polypeptide binding]; other site 187303009309 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 187303009310 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 187303009311 active site 187303009312 dimer interface [polypeptide binding]; other site 187303009313 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 187303009314 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 187303009315 active site 187303009316 FMN binding site [chemical binding]; other site 187303009317 substrate binding site [chemical binding]; other site 187303009318 3Fe-4S cluster binding site [ion binding]; other site 187303009319 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 187303009320 domain interface; other site 187303009321 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 187303009322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 187303009323 metal binding site [ion binding]; metal-binding site 187303009324 active site 187303009325 I-site; other site 187303009326 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 187303009327 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 187303009328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 187303009329 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 187303009330 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 187303009331 active site 187303009332 oxyanion hole [active] 187303009333 catalytic triad [active] 187303009334 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 187303009335 B1 nucleotide binding pocket [chemical binding]; other site 187303009336 B2 nucleotide binding pocket [chemical binding]; other site 187303009337 CAS motifs; other site 187303009338 active site 187303009339 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 187303009340 putative glutathione S-transferase; Provisional; Region: PRK10357 187303009341 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 187303009342 putative C-terminal domain interface [polypeptide binding]; other site 187303009343 putative GSH binding site (G-site) [chemical binding]; other site 187303009344 putative dimer interface [polypeptide binding]; other site 187303009345 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 187303009346 dimer interface [polypeptide binding]; other site 187303009347 N-terminal domain interface [polypeptide binding]; other site 187303009348 putative substrate binding pocket (H-site) [chemical binding]; other site 187303009349 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 187303009350 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK13964 187303009351 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 187303009352 active site 187303009353 (T/H)XGH motif; other site 187303009354 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 187303009355 active site 187303009356 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 187303009357 active site 187303009358 PRC-barrel domain; Region: PRC; pfam05239 187303009359 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 187303009360 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 187303009361 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 187303009362 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 187303009363 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 187303009364 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 187303009365 non-specific DNA binding site [nucleotide binding]; other site 187303009366 salt bridge; other site 187303009367 sequence-specific DNA binding site [nucleotide binding]; other site 187303009368 DNA methylase; Region: N6_N4_Mtase; cl17433 187303009369 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 187303009370 Methyltransferase domain; Region: Methyltransf_26; pfam13659 187303009371 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 187303009372 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 187303009373 generic binding surface II; other site 187303009374 ssDNA binding site; other site 187303009375 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 187303009376 ATP binding site [chemical binding]; other site 187303009377 putative Mg++ binding site [ion binding]; other site 187303009378 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 187303009379 nucleotide binding region [chemical binding]; other site 187303009380 ATP-binding site [chemical binding]; other site 187303009381 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 187303009382 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 187303009383 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 187303009384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 187303009385 active site 187303009386 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 187303009387 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 187303009388 C-terminal domain interface [polypeptide binding]; other site 187303009389 GSH binding site (G-site) [chemical binding]; other site 187303009390 dimer interface [polypeptide binding]; other site 187303009391 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 187303009392 N-terminal domain interface [polypeptide binding]; other site 187303009393 putative dimer interface [polypeptide binding]; other site 187303009394 active site 187303009395 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 187303009396 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 187303009397 N-acetyl-D-glucosamine binding site [chemical binding]; other site 187303009398 catalytic residue [active] 187303009399 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 187303009400 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 187303009401 FeS/SAM binding site; other site 187303009402 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 187303009403 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 187303009404 intersubunit interface [polypeptide binding]; other site 187303009405 active site 187303009406 Zn2+ binding site [ion binding]; other site 187303009407 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 187303009408 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 187303009409 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 187303009410 Protein of unknown function, DUF482; Region: DUF482; pfam04339 187303009411 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 187303009412 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 187303009413 active site 187303009414 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 187303009415 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 187303009416 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 187303009417 active site 187303009418 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 187303009419 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 187303009420 active site 187303009421 dimer interface [polypeptide binding]; other site 187303009422 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 187303009423 dimer interface [polypeptide binding]; other site 187303009424 active site 187303009425 O-methyltransferase; Region: Methyltransf_2; pfam00891 187303009426 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 187303009427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 187303009428 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 187303009429 dimerization interface [polypeptide binding]; other site 187303009430 Uncharacterized conserved protein [Function unknown]; Region: COG5276 187303009431 LVIVD repeat; Region: LVIVD; pfam08309 187303009432 LVIVD repeat; Region: LVIVD; pfam08309 187303009433 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303009434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 187303009435 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 187303009436 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 187303009437 active site 187303009438 nucleophile elbow; other site 187303009439 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 187303009440 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 187303009441 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 187303009442 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 187303009443 DNA-binding site [nucleotide binding]; DNA binding site 187303009444 RNA-binding motif; other site 187303009445 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 187303009446 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 187303009447 hypothetical protein; Provisional; Region: PRK05409 187303009448 Predicted integral membrane protein [Function unknown]; Region: COG5572 187303009449 RNA polymerase sigma factor; Provisional; Region: PRK12536 187303009450 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 187303009451 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 187303009452 DNA binding residues [nucleotide binding] 187303009453 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 187303009454 GYD domain; Region: GYD; cl01743 187303009455 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 187303009456 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 187303009457 HlyD family secretion protein; Region: HlyD_3; pfam13437 187303009458 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 187303009459 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 187303009460 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 187303009461 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 187303009462 dimer interface [polypeptide binding]; other site 187303009463 active site 187303009464 glycine-pyridoxal phosphate binding site [chemical binding]; other site 187303009465 folate binding site [chemical binding]; other site 187303009466 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 187303009467 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 187303009468 Mg2+ binding site [ion binding]; other site 187303009469 G-X-G motif; other site 187303009470 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 187303009471 anchoring element; other site 187303009472 dimer interface [polypeptide binding]; other site 187303009473 ATP binding site [chemical binding]; other site 187303009474 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 187303009475 active site 187303009476 putative metal-binding site [ion binding]; other site 187303009477 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 187303009478 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 187303009479 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 187303009480 NAD binding site [chemical binding]; other site 187303009481 catalytic Zn binding site [ion binding]; other site 187303009482 structural Zn binding site [ion binding]; other site 187303009483 recombination protein F; Reviewed; Region: recF; PRK00064 187303009484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303009485 Walker A/P-loop; other site 187303009486 ATP binding site [chemical binding]; other site 187303009487 Q-loop/lid; other site 187303009488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 187303009489 ABC transporter signature motif; other site 187303009490 Walker B; other site 187303009491 D-loop; other site 187303009492 H-loop/switch region; other site 187303009493 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 187303009494 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 187303009495 Flavoprotein; Region: Flavoprotein; pfam02441 187303009496 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 187303009497 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 187303009498 trimer interface [polypeptide binding]; other site 187303009499 active site 187303009500 Transcriptional regulator; Region: Rrf2; pfam02082 187303009501 enoyl-CoA hydratase; Provisional; Region: PRK05862 187303009502 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 187303009503 substrate binding site [chemical binding]; other site 187303009504 oxyanion hole (OAH) forming residues; other site 187303009505 trimer interface [polypeptide binding]; other site 187303009506 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239