-- dump date 20140620_021146 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1007105000001 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1007105000002 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1007105000003 metal binding site [ion binding]; metal-binding site 1007105000004 putative dimer interface [polypeptide binding]; other site 1007105000005 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1007105000006 active site 1007105000007 substrate binding pocket [chemical binding]; other site 1007105000008 dimer interface [polypeptide binding]; other site 1007105000009 ABC transporter ATPase component; Reviewed; Region: PRK11147 1007105000010 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105000011 ABC transporter; Region: ABC_tran_2; pfam12848 1007105000012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105000013 cell division protein MraZ; Reviewed; Region: PRK00326 1007105000014 MraZ protein; Region: MraZ; pfam02381 1007105000015 MraW methylase family; Region: Methyltransf_5; cl17771 1007105000016 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1007105000017 Cell division protein FtsL; Region: FtsL; cl11433 1007105000018 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1007105000019 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1007105000020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1007105000021 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1007105000022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1007105000023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105000024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1007105000025 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1007105000026 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105000027 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1007105000028 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1007105000029 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 1007105000030 Mg++ binding site [ion binding]; other site 1007105000031 putative catalytic motif [active] 1007105000032 putative substrate binding site [chemical binding]; other site 1007105000033 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1007105000034 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105000035 cell division protein FtsW; Region: ftsW; TIGR02614 1007105000036 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1007105000037 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 1007105000038 active site 1007105000039 homodimer interface [polypeptide binding]; other site 1007105000040 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1007105000041 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1007105000042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105000043 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1007105000044 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1007105000045 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1007105000046 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105000047 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1007105000048 Cell division protein FtsQ; Region: FtsQ; pfam03799 1007105000049 cell division protein FtsA; Region: ftsA; TIGR01174 1007105000050 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1007105000051 nucleotide binding site [chemical binding]; other site 1007105000052 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1007105000053 Cell division protein FtsA; Region: FtsA; pfam14450 1007105000054 cell division protein FtsZ; Validated; Region: PRK09330 1007105000055 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 1007105000056 nucleotide binding site [chemical binding]; other site 1007105000057 SulA interaction site; other site 1007105000058 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1007105000059 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1007105000060 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1007105000061 Protein of unknown function (DUF721); Region: DUF721; cl02324 1007105000062 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1007105000063 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105000064 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1007105000065 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1007105000066 SEC-C motif; Region: SEC-C; pfam02810 1007105000067 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1007105000068 MgtE intracellular N domain; Region: MgtE_N; smart00924 1007105000069 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 1007105000070 Divalent cation transporter; Region: MgtE; cl00786 1007105000071 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1007105000072 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1007105000073 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1007105000074 metal binding site [ion binding]; metal-binding site 1007105000075 putative dimer interface [polypeptide binding]; other site 1007105000076 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1007105000077 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 1007105000078 active site 1007105000079 dimerization interface [polypeptide binding]; other site 1007105000080 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1007105000081 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1007105000082 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1007105000083 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1007105000084 active site 1007105000085 catalytic site [active] 1007105000086 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1007105000087 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1007105000088 putative active site [active] 1007105000089 putative metal binding site [ion binding]; other site 1007105000090 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1007105000091 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1007105000092 Walker A/P-loop; other site 1007105000093 ATP binding site [chemical binding]; other site 1007105000094 Q-loop/lid; other site 1007105000095 ABC transporter signature motif; other site 1007105000096 Walker B; other site 1007105000097 D-loop; other site 1007105000098 H-loop/switch region; other site 1007105000099 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1007105000100 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 1007105000101 dimer interface [polypeptide binding]; other site 1007105000102 conserved gate region; other site 1007105000103 ABC-ATPase subunit interface; other site 1007105000104 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1007105000105 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1007105000106 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1007105000107 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 1007105000108 substrate binding pocket [chemical binding]; other site 1007105000109 membrane-bound complex binding site; other site 1007105000110 hinge residues; other site 1007105000111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1007105000112 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 1007105000113 dimer interface [polypeptide binding]; other site 1007105000114 conserved gate region; other site 1007105000115 putative PBP binding loops; other site 1007105000116 ABC-ATPase subunit interface; other site 1007105000117 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1007105000118 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105000119 Walker A/P-loop; other site 1007105000120 ATP binding site [chemical binding]; other site 1007105000121 Q-loop/lid; other site 1007105000122 ABC transporter signature motif; other site 1007105000123 Walker B; other site 1007105000124 D-loop; other site 1007105000125 H-loop/switch region; other site 1007105000126 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 1007105000127 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 1007105000128 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1007105000129 Substrate binding site; other site 1007105000130 metal-binding site 1007105000131 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1007105000132 Phosphotransferase enzyme family; Region: APH; pfam01636 1007105000133 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1007105000134 OstA-like protein; Region: OstA; cl00844 1007105000135 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1007105000136 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1007105000137 SurA N-terminal domain; Region: SurA_N; pfam09312 1007105000138 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1007105000139 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1007105000140 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1007105000141 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1007105000142 S-adenosylmethionine binding site [chemical binding]; other site 1007105000143 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1007105000144 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1007105000145 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1007105000146 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105000147 active site 1007105000148 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1007105000149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105000150 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1007105000151 dimer interface [polypeptide binding]; other site 1007105000152 active site 1007105000153 metal binding site [ion binding]; metal-binding site 1007105000154 glutathione binding site [chemical binding]; other site 1007105000155 Protein of unknown function DUF45; Region: DUF45; pfam01863 1007105000156 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1007105000157 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1007105000158 putative acyl-acceptor binding pocket; other site 1007105000159 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1007105000160 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 1007105000161 active site 1007105000162 motif I; other site 1007105000163 motif II; other site 1007105000164 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1007105000165 DALR anticodon binding domain; Region: DALR_1; pfam05746 1007105000166 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 1007105000167 motif 1; other site 1007105000168 dimer interface [polypeptide binding]; other site 1007105000169 active site 1007105000170 motif 2; other site 1007105000171 motif 3; other site 1007105000172 enoyl-CoA hydratase; Provisional; Region: PRK08252 1007105000173 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 1007105000174 substrate binding site [chemical binding]; other site 1007105000175 oxyanion hole (OAH) forming residues; other site 1007105000176 trimer interface [polypeptide binding]; other site 1007105000177 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1007105000178 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1007105000179 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1007105000180 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 1007105000181 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 1007105000182 active site 2 [active] 1007105000183 active site 1 [active] 1007105000184 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105000185 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105000186 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1007105000187 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 1007105000188 catalytic center binding site [active] 1007105000189 ATP binding site [chemical binding]; other site 1007105000190 poly(A) polymerase; Region: pcnB; TIGR01942 1007105000191 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1007105000192 active site 1007105000193 NTP binding site [chemical binding]; other site 1007105000194 metal binding triad [ion binding]; metal-binding site 1007105000195 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1007105000196 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1007105000197 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1007105000198 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1007105000199 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1007105000200 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1007105000201 Walker A motif; other site 1007105000202 ATP binding site [chemical binding]; other site 1007105000203 Walker B motif; other site 1007105000204 arginine finger; other site 1007105000205 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1007105000206 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 1007105000207 dimerization interface [polypeptide binding]; other site 1007105000208 putative ATP binding site [chemical binding]; other site 1007105000209 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1007105000210 IPP transferase; Region: IPPT; pfam01715 1007105000211 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1007105000212 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 1007105000213 ATP binding site [chemical binding]; other site 1007105000214 Mg2+ binding site [ion binding]; other site 1007105000215 G-X-G motif; other site 1007105000216 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 1007105000217 ATP binding site [chemical binding]; other site 1007105000218 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1007105000219 AMIN domain; Region: AMIN; pfam11741 1007105000220 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 1007105000221 active site 1007105000222 metal binding site [ion binding]; metal-binding site 1007105000223 Predicted permeases [General function prediction only]; Region: COG0679 1007105000224 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105000225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105000226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105000227 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1007105000228 putative effector binding pocket; other site 1007105000229 dimerization interface [polypeptide binding]; other site 1007105000230 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1007105000231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105000232 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1007105000233 CoA binding domain; Region: CoA_binding_2; pfam13380 1007105000234 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1007105000235 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1007105000236 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105000237 DUF35 OB-fold domain; Region: DUF35; pfam01796 1007105000238 thiolase; Provisional; Region: PRK06158 1007105000239 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1007105000240 active site 1007105000241 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105000242 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 1007105000243 DNA binding site [nucleotide binding] 1007105000244 sequence specific DNA binding site [nucleotide binding]; other site 1007105000245 putative cAMP binding site [chemical binding]; other site 1007105000246 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105000247 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1007105000248 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1007105000249 putative deacylase active site [active] 1007105000250 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1007105000251 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1007105000252 active site 1007105000253 Int/Topo IB signature motif; other site 1007105000254 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1007105000255 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1007105000256 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1007105000257 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 1007105000258 dimer interface [polypeptide binding]; other site 1007105000259 conserved gate region; other site 1007105000260 putative PBP binding loops; other site 1007105000261 ABC-ATPase subunit interface; other site 1007105000262 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1007105000263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105000264 Walker A/P-loop; other site 1007105000265 ATP binding site [chemical binding]; other site 1007105000266 Q-loop/lid; other site 1007105000267 ABC transporter signature motif; other site 1007105000268 Walker B; other site 1007105000269 D-loop; other site 1007105000270 H-loop/switch region; other site 1007105000271 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1007105000272 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1007105000273 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1007105000274 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1007105000275 probable DNA repair protein; Region: TIGR03623 1007105000276 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1007105000277 Part of AAA domain; Region: AAA_19; pfam13245 1007105000278 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1007105000279 Family description; Region: UvrD_C_2; pfam13538 1007105000280 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1007105000281 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 1007105000282 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 1007105000283 Walker A motif; other site 1007105000284 ATP binding site [chemical binding]; other site 1007105000285 Walker B motif; other site 1007105000286 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1007105000287 arginine finger; other site 1007105000288 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1007105000289 hypothetical protein; Validated; Region: PRK00153 1007105000290 recombination protein RecR; Reviewed; Region: recR; PRK00076 1007105000291 RecR protein; Region: RecR; pfam02132 1007105000292 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 1007105000293 putative active site [active] 1007105000294 putative metal-binding site [ion binding]; other site 1007105000295 tetramer interface [polypeptide binding]; other site 1007105000296 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1007105000297 NMT1-like family; Region: NMT1_2; pfam13379 1007105000298 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1007105000299 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1007105000300 Walker A/P-loop; other site 1007105000301 ATP binding site [chemical binding]; other site 1007105000302 Q-loop/lid; other site 1007105000303 ABC transporter signature motif; other site 1007105000304 Walker B; other site 1007105000305 D-loop; other site 1007105000306 H-loop/switch region; other site 1007105000307 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105000308 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 1007105000309 dimer interface [polypeptide binding]; other site 1007105000310 conserved gate region; other site 1007105000311 putative PBP binding loops; other site 1007105000312 ABC-ATPase subunit interface; other site 1007105000313 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1007105000314 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 1007105000315 FeS/SAM binding site; other site 1007105000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1007105000317 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1007105000318 transaldolase-like protein; Provisional; Region: PTZ00411 1007105000319 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1007105000320 active site 1007105000321 dimer interface [polypeptide binding]; other site 1007105000322 catalytic residue [active] 1007105000323 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1007105000324 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1007105000325 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1007105000326 catalytic site [active] 1007105000327 subunit interface [polypeptide binding]; other site 1007105000328 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1007105000329 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105000330 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1007105000331 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1007105000332 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105000333 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105000334 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 1007105000335 IMP binding site; other site 1007105000336 dimer interface [polypeptide binding]; other site 1007105000337 interdomain contacts; other site 1007105000338 partial ornithine binding site; other site 1007105000339 short chain dehydrogenase; Provisional; Region: PRK07024 1007105000340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105000341 NAD(P) binding site [chemical binding]; other site 1007105000342 active site 1007105000343 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 1007105000344 catalytic core [active] 1007105000345 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1007105000346 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1007105000347 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1007105000348 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105000349 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1007105000350 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1007105000351 tetramer interface [polypeptide binding]; other site 1007105000352 active site 1007105000353 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1007105000354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105000355 DNA-binding site [nucleotide binding]; DNA binding site 1007105000356 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1007105000357 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1007105000358 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1007105000359 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1007105000360 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 1007105000361 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1007105000362 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 1007105000363 S-adenosylmethionine binding site [chemical binding]; other site 1007105000364 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1007105000365 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 1007105000366 Walker A motif; other site 1007105000367 ATP binding site [chemical binding]; other site 1007105000368 Walker B motif; other site 1007105000369 arginine finger; other site 1007105000370 Peptidase family M41; Region: Peptidase_M41; pfam01434 1007105000371 dihydropteroate synthase; Region: DHPS; TIGR01496 1007105000372 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 1007105000373 substrate binding pocket [chemical binding]; other site 1007105000374 dimer interface [polypeptide binding]; other site 1007105000375 inhibitor binding site; inhibition site 1007105000376 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1007105000377 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 1007105000378 active site 1007105000379 substrate binding site [chemical binding]; other site 1007105000380 metal binding site [ion binding]; metal-binding site 1007105000381 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1007105000382 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1007105000383 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1007105000384 polyphosphate kinase; Provisional; Region: PRK05443 1007105000385 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1007105000386 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1007105000387 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1007105000388 putative domain interface [polypeptide binding]; other site 1007105000389 putative active site [active] 1007105000390 catalytic site [active] 1007105000391 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1007105000392 putative domain interface [polypeptide binding]; other site 1007105000393 putative active site [active] 1007105000394 catalytic site [active] 1007105000395 PBP superfamily domain; Region: PBP_like_2; cl17296 1007105000396 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1007105000397 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 1007105000398 dimer interface [polypeptide binding]; other site 1007105000399 conserved gate region; other site 1007105000400 putative PBP binding loops; other site 1007105000401 ABC-ATPase subunit interface; other site 1007105000402 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1007105000403 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 1007105000404 dimer interface [polypeptide binding]; other site 1007105000405 conserved gate region; other site 1007105000406 putative PBP binding loops; other site 1007105000407 ABC-ATPase subunit interface; other site 1007105000408 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1007105000409 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1007105000410 Walker A/P-loop; other site 1007105000411 ATP binding site [chemical binding]; other site 1007105000412 Q-loop/lid; other site 1007105000413 ABC transporter signature motif; other site 1007105000414 Walker B; other site 1007105000415 D-loop; other site 1007105000416 H-loop/switch region; other site 1007105000417 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1007105000418 Peptidase S8 family domain, uncharacterized subfamily 12; Region: Peptidases_S8_12; cd07480 1007105000419 active site 1007105000420 catalytic triad [active] 1007105000421 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1007105000422 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1007105000423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105000424 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1007105000425 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1007105000426 dimer interface [polypeptide binding]; other site 1007105000427 acyl-activating enzyme (AAE) consensus motif; other site 1007105000428 putative active site [active] 1007105000429 AMP binding site [chemical binding]; other site 1007105000430 putative CoA binding site [chemical binding]; other site 1007105000431 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105000432 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 1007105000433 substrate binding site [chemical binding]; other site 1007105000434 oxyanion hole (OAH) forming residues; other site 1007105000435 trimer interface [polypeptide binding]; other site 1007105000436 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105000437 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105000438 putative ligand binding site [chemical binding]; other site 1007105000439 DoxX; Region: DoxX; pfam07681 1007105000440 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105000441 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1007105000442 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1007105000443 active site 1007105000444 acyl-activating enzyme (AAE) consensus motif; other site 1007105000445 putative CoA binding site [chemical binding]; other site 1007105000446 AMP binding site [chemical binding]; other site 1007105000447 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1007105000448 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 1007105000449 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 1007105000450 Transporter associated domain; Region: CorC_HlyC; pfam03471 1007105000451 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1007105000452 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 1007105000453 Sulfatase; Region: Sulfatase; pfam00884 1007105000454 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105000455 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1007105000456 putative ligand binding site [chemical binding]; other site 1007105000457 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105000458 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105000459 TM-ABC transporter signature motif; other site 1007105000460 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105000461 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105000462 TM-ABC transporter signature motif; other site 1007105000463 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105000464 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105000465 Walker A/P-loop; other site 1007105000466 ATP binding site [chemical binding]; other site 1007105000467 Q-loop/lid; other site 1007105000468 ABC transporter signature motif; other site 1007105000469 Walker B; other site 1007105000470 D-loop; other site 1007105000471 H-loop/switch region; other site 1007105000472 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105000473 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105000474 Walker A/P-loop; other site 1007105000475 ATP binding site [chemical binding]; other site 1007105000476 Q-loop/lid; other site 1007105000477 ABC transporter signature motif; other site 1007105000478 Walker B; other site 1007105000479 D-loop; other site 1007105000480 H-loop/switch region; other site 1007105000481 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1007105000482 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 1007105000483 dimer interface [polypeptide binding]; other site 1007105000484 PYR/PP interface [polypeptide binding]; other site 1007105000485 TPP binding site [chemical binding]; other site 1007105000486 substrate binding site [chemical binding]; other site 1007105000487 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 1007105000488 TPP-binding site [chemical binding]; other site 1007105000489 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1007105000490 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 1007105000491 substrate binding site [chemical binding]; other site 1007105000492 dimerization interface [polypeptide binding]; other site 1007105000493 active site 1007105000494 calcium binding site [ion binding]; other site 1007105000495 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 1007105000496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105000497 putative substrate translocation pore; other site 1007105000498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105000499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105000500 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1007105000501 putative effector binding pocket; other site 1007105000502 putative dimerization interface [polypeptide binding]; other site 1007105000503 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1007105000504 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1007105000505 NAD(P) binding site [chemical binding]; other site 1007105000506 putative active site [active] 1007105000507 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1007105000508 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1007105000509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105000510 Walker A/P-loop; other site 1007105000511 ATP binding site [chemical binding]; other site 1007105000512 Q-loop/lid; other site 1007105000513 ABC transporter signature motif; other site 1007105000514 Walker B; other site 1007105000515 D-loop; other site 1007105000516 H-loop/switch region; other site 1007105000517 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 1007105000518 active site 1007105000519 catalytic residue [active] 1007105000520 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1007105000521 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 1007105000522 non-specific DNA binding site [nucleotide binding]; other site 1007105000523 salt bridge; other site 1007105000524 sequence-specific DNA binding site [nucleotide binding]; other site 1007105000525 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1007105000526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105000527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105000528 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1007105000529 putative effector binding pocket; other site 1007105000530 putative dimerization interface [polypeptide binding]; other site 1007105000531 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1007105000532 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105000533 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105000534 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1007105000535 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1007105000536 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1007105000537 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1007105000538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105000539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105000540 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1007105000541 putative effector binding pocket; other site 1007105000542 dimerization interface [polypeptide binding]; other site 1007105000543 acetylornithine deacetylase; Provisional; Region: PRK07522 1007105000544 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1007105000545 metal binding site [ion binding]; metal-binding site 1007105000546 putative dimer interface [polypeptide binding]; other site 1007105000547 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105000548 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 1007105000549 catalytic core [active] 1007105000550 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1007105000551 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1007105000552 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1007105000553 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 1007105000554 homodimer interface [polypeptide binding]; other site 1007105000555 substrate-cofactor binding pocket; other site 1007105000556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105000557 catalytic residue [active] 1007105000558 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105000559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105000560 DNA-binding site [nucleotide binding]; DNA binding site 1007105000561 FCD domain; Region: FCD; pfam07729 1007105000562 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1007105000563 enoyl-CoA hydratase; Provisional; Region: PRK06127 1007105000564 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 1007105000565 substrate binding site [chemical binding]; other site 1007105000566 oxyanion hole (OAH) forming residues; other site 1007105000567 trimer interface [polypeptide binding]; other site 1007105000568 malonyl-CoA synthase; Validated; Region: PRK07514 1007105000569 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1007105000570 acyl-activating enzyme (AAE) consensus motif; other site 1007105000571 active site 1007105000572 AMP binding site [chemical binding]; other site 1007105000573 CoA binding site [chemical binding]; other site 1007105000574 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105000575 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105000576 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1007105000577 DctM-like transporters; Region: DctM; pfam06808 1007105000578 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105000579 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1007105000580 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1007105000581 putative active site [active] 1007105000582 catalytic site [active] 1007105000583 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1007105000584 putative active site [active] 1007105000585 catalytic site [active] 1007105000586 Predicted metalloprotease [General function prediction only]; Region: COG2321 1007105000587 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1007105000588 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1007105000589 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1007105000590 Peptidase family M50; Region: Peptidase_M50; pfam02163 1007105000591 active site 1007105000592 putative substrate binding region [chemical binding]; other site 1007105000593 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1007105000594 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1007105000595 dimer interface [polypeptide binding]; other site 1007105000596 active site 1007105000597 catalytic residue [active] 1007105000598 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1007105000599 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1007105000600 siroheme synthase; Provisional; Region: cysG; PRK10637 1007105000601 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1007105000602 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1007105000603 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1007105000604 active site 1007105000605 SAM binding site [chemical binding]; other site 1007105000606 homodimer interface [polypeptide binding]; other site 1007105000607 sulfite reductase subunit beta; Provisional; Region: PRK13504 1007105000608 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1007105000609 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1007105000610 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1007105000611 Flavodoxin; Region: Flavodoxin_1; pfam00258 1007105000612 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 1007105000613 FAD binding pocket [chemical binding]; other site 1007105000614 FAD binding motif [chemical binding]; other site 1007105000615 catalytic residues [active] 1007105000616 NAD binding pocket [chemical binding]; other site 1007105000617 phosphate binding motif [ion binding]; other site 1007105000618 beta-alpha-beta structure motif; other site 1007105000619 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1007105000620 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1007105000621 MutS domain I; Region: MutS_I; pfam01624 1007105000622 MutS domain II; Region: MutS_II; pfam05188 1007105000623 MutS domain III; Region: MutS_III; pfam05192 1007105000624 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1007105000625 Walker A/P-loop; other site 1007105000626 ATP binding site [chemical binding]; other site 1007105000627 Q-loop/lid; other site 1007105000628 ABC transporter signature motif; other site 1007105000629 Walker B; other site 1007105000630 D-loop; other site 1007105000631 H-loop/switch region; other site 1007105000632 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 1007105000633 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1007105000634 metal ion-dependent adhesion site (MIDAS); other site 1007105000635 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1007105000636 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1007105000637 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105000638 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 1007105000639 Moco binding site; other site 1007105000640 metal coordination site [ion binding]; other site 1007105000641 PAS fold; Region: PAS_4; pfam08448 1007105000642 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 1007105000643 putative active site [active] 1007105000644 heme pocket [chemical binding]; other site 1007105000645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105000646 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 1007105000647 dimer interface [polypeptide binding]; other site 1007105000648 phosphorylation site [posttranslational modification] 1007105000649 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 1007105000650 ATP binding site [chemical binding]; other site 1007105000651 Mg2+ binding site [ion binding]; other site 1007105000652 G-X-G motif; other site 1007105000653 Response regulator receiver domain; Region: Response_reg; pfam00072 1007105000654 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 1007105000655 active site 1007105000656 phosphorylation site [posttranslational modification] 1007105000657 intermolecular recognition site; other site 1007105000658 dimerization interface [polypeptide binding]; other site 1007105000659 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 1007105000660 DNA binding residues [nucleotide binding] 1007105000661 dimerization interface [polypeptide binding]; other site 1007105000662 Autotransporter beta-domain; Region: Autotransporter; smart00869 1007105000663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105000664 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1007105000665 putative ADP-binding pocket [chemical binding]; other site 1007105000666 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1007105000667 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1007105000668 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1007105000669 putative NADH binding site [chemical binding]; other site 1007105000670 putative active site [active] 1007105000671 nudix motif; other site 1007105000672 putative metal binding site [ion binding]; other site 1007105000673 Putative methyltransferase; Region: Methyltransf_16; pfam10294 1007105000674 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1007105000675 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105000676 catalytic residue [active] 1007105000677 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1007105000678 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1007105000679 PRC-barrel domain; Region: PRC; pfam05239 1007105000680 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1007105000681 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1007105000682 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105000683 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 1007105000684 putative Zn2+ binding site [ion binding]; other site 1007105000685 putative DNA binding site [nucleotide binding]; other site 1007105000686 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105000687 Coenzyme A transferase; Region: CoA_trans; cl17247 1007105000688 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1007105000689 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1007105000690 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1007105000691 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1007105000692 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 1007105000693 active site 1007105000694 dimerization interface [polypeptide binding]; other site 1007105000695 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1007105000696 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1007105000697 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 1007105000698 Transporter associated domain; Region: CorC_HlyC; pfam03471 1007105000699 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1007105000700 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1007105000701 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1007105000702 putative active site [active] 1007105000703 putative metal binding site [ion binding]; other site 1007105000704 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1007105000705 substrate binding site [chemical binding]; other site 1007105000706 TPR repeat; Region: TPR_11; pfam13414 1007105000707 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 1007105000708 binding surface 1007105000709 TPR motif; other site 1007105000710 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1007105000711 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1007105000712 active site 1007105000713 HIGH motif; other site 1007105000714 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1007105000715 KMSKS motif; other site 1007105000716 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1007105000717 tRNA binding surface [nucleotide binding]; other site 1007105000718 anticodon binding site; other site 1007105000719 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1007105000720 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1007105000721 endonuclease III; Region: ENDO3c; smart00478 1007105000722 minor groove reading motif; other site 1007105000723 helix-hairpin-helix signature motif; other site 1007105000724 substrate binding pocket [chemical binding]; other site 1007105000725 active site 1007105000726 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1007105000727 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1007105000728 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 1007105000729 Ligand Binding Site [chemical binding]; other site 1007105000730 TilS substrate binding domain; Region: TilS; pfam09179 1007105000731 aspartate kinase; Reviewed; Region: PRK06635 1007105000732 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 1007105000733 putative nucleotide binding site [chemical binding]; other site 1007105000734 putative catalytic residues [active] 1007105000735 putative Mg ion binding site [ion binding]; other site 1007105000736 putative aspartate binding site [chemical binding]; other site 1007105000737 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 1007105000738 putative allosteric regulatory site; other site 1007105000739 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 1007105000740 integrase; Provisional; Region: PRK09692 1007105000741 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 1007105000742 active site 1007105000743 Int/Topo IB signature motif; other site 1007105000744 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 1007105000745 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1007105000746 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1007105000747 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 1007105000748 P-loop; other site 1007105000749 Magnesium ion binding site [ion binding]; other site 1007105000750 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 1007105000751 Magnesium ion binding site [ion binding]; other site 1007105000752 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1007105000753 ParB-like nuclease domain; Region: ParB; smart00470 1007105000754 KorB domain; Region: KorB; pfam08535 1007105000755 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 1007105000756 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1007105000757 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1007105000758 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1007105000759 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1007105000760 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1007105000761 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105000762 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1007105000763 MPN+ (JAMM) motif; other site 1007105000764 Zinc-binding site [ion binding]; other site 1007105000765 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1007105000766 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 1007105000767 sequence-specific DNA binding site [nucleotide binding]; other site 1007105000768 salt bridge; other site 1007105000769 Antirestriction protein; Region: Antirestrict; pfam03230 1007105000770 DNA cytosine methylase; Provisional; Region: PRK10458 1007105000771 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1007105000772 ParB-like nuclease domain; Region: ParB; smart00470 1007105000773 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1007105000774 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1007105000775 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 1007105000776 oligomeric interface; other site 1007105000777 putative active site [active] 1007105000778 homodimer interface [polypeptide binding]; other site 1007105000779 DNA methylase; Region: N6_N4_Mtase; cl17433 1007105000780 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1007105000781 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1007105000782 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1007105000783 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1007105000784 Surface antigen; Region: Bac_surface_Ag; pfam01103 1007105000785 Uncharacterized conserved protein [Function unknown]; Region: COG5306 1007105000786 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 1007105000787 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1007105000788 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1007105000789 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1007105000790 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1007105000791 TonB C terminal; Region: TonB_2; pfam13103 1007105000792 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1007105000793 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1007105000794 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1007105000795 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1007105000796 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1007105000797 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1007105000798 Secretin and TonB N terminus short domain; Region: STN; smart00965 1007105000799 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1007105000800 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1007105000801 FecR protein; Region: FecR; pfam04773 1007105000802 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1007105000803 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1007105000804 Secretin and TonB N terminus short domain; Region: STN; smart00965 1007105000805 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1007105000806 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105000807 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1007105000808 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1007105000809 FecR protein; Region: FecR; pfam04773 1007105000810 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1007105000811 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1007105000812 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1007105000813 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1007105000814 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 1007105000815 protein binding site [polypeptide binding]; other site 1007105000816 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 1007105000817 Chain length determinant protein; Region: Wzz; pfam02706 1007105000818 Secretin and TonB N terminus short domain; Region: STN; smart00965 1007105000819 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1007105000820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105000821 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 1007105000822 DNA binding residues [nucleotide binding] 1007105000823 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1007105000824 FecR protein; Region: FecR; pfam04773 1007105000825 Secretin and TonB N terminus short domain; Region: STN; smart00965 1007105000826 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1007105000827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105000828 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 1007105000829 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1007105000830 FecR protein; Region: FecR; pfam04773 1007105000831 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 1007105000832 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1007105000833 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1007105000834 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 1007105000835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105000836 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; cl02788 1007105000837 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1007105000838 DNA-binding interface [nucleotide binding]; DNA binding site 1007105000839 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1007105000840 Helix-turn-helix domain; Region: HTH_38; pfam13936 1007105000841 Homeodomain-like domain; Region: HTH_32; pfam13565 1007105000842 TrwC relaxase; Region: TrwC; pfam08751 1007105000843 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1007105000844 AAA domain; Region: AAA_30; pfam13604 1007105000845 Family description; Region: UvrD_C_2; pfam13538 1007105000846 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 1007105000847 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1007105000848 Walker A motif; other site 1007105000849 ATP binding site [chemical binding]; other site 1007105000850 Walker B motif; other site 1007105000851 RES domain; Region: RES; pfam08808 1007105000852 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1007105000853 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1007105000854 Replication initiator protein A; Region: RPA; pfam10134 1007105000855 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1007105000856 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 1007105000857 Walker A motif; other site 1007105000858 ATP binding site [chemical binding]; other site 1007105000859 Walker B motif; other site 1007105000860 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1007105000861 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1007105000862 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1007105000863 VirB7 interaction site; other site 1007105000864 VirB8 protein; Region: VirB8; pfam04335 1007105000865 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1007105000866 putative active site [active] 1007105000867 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1007105000868 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1007105000869 Type IV secretion system proteins; Region: T4SS; pfam07996 1007105000870 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1007105000871 AAA-like domain; Region: AAA_10; pfam12846 1007105000872 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1007105000873 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 1007105000874 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105000875 catalytic residue [active] 1007105000876 conjugal transfer protein TrbM; Provisional; Region: PRK13893 1007105000877 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 1007105000878 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 1007105000879 Walker A motif; other site 1007105000880 ATP binding site [chemical binding]; other site 1007105000881 Walker B motif; other site 1007105000882 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1007105000883 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105000884 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105000885 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 1007105000886 Walker A motif; other site 1007105000887 ATP binding site [chemical binding]; other site 1007105000888 Walker B motif; other site 1007105000889 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 1007105000890 PilM; Region: PilM; pfam07419 1007105000891 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1007105000892 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1007105000893 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1007105000894 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1007105000895 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 1007105000896 metal-binding site [ion binding] 1007105000897 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1007105000898 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 1007105000899 motif II; other site 1007105000900 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1007105000901 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1007105000902 DNA binding residues [nucleotide binding] 1007105000903 dimer interface [polypeptide binding]; other site 1007105000904 putative metal binding site [ion binding]; other site 1007105000905 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 1007105000906 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1007105000907 metal-binding site [ion binding] 1007105000908 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1007105000909 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 1007105000910 motif II; other site 1007105000911 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 1007105000912 amphipathic channel; other site 1007105000913 Asn-Pro-Ala signature motifs; other site 1007105000914 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1007105000915 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 1007105000916 putative catalytic residue [active] 1007105000917 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 1007105000918 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1007105000919 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1007105000920 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1007105000921 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1007105000922 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1007105000923 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1007105000924 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1007105000925 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1007105000926 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1007105000927 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1007105000928 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1007105000929 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1007105000930 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 1007105000931 Walker A motif; other site 1007105000932 ATP binding site [chemical binding]; other site 1007105000933 Walker B motif; other site 1007105000934 arginine finger; other site 1007105000935 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 1007105000936 Walker A motif; other site 1007105000937 ATP binding site [chemical binding]; other site 1007105000938 Walker B motif; other site 1007105000939 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1007105000940 FHA domain; Region: FHA; pfam00498 1007105000941 phosphopeptide binding site; other site 1007105000942 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1007105000943 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1007105000944 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1007105000945 hypothetical protein; Provisional; Region: PRK07033 1007105000946 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1007105000947 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105000948 ligand binding site [chemical binding]; other site 1007105000949 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1007105000950 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1007105000951 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1007105000952 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1007105000953 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1007105000954 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1007105000955 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1007105000956 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1007105000957 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1007105000958 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1007105000959 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1007105000960 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000961 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000962 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000963 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000964 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000965 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1007105000966 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1007105000967 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000968 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105000969 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1007105000970 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 1007105000971 TPR repeat; Region: TPR_11; pfam13414 1007105000972 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 1007105000973 binding surface 1007105000974 TPR motif; other site 1007105000975 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105000976 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1007105000977 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105000978 DctM-like transporters; Region: DctM; pfam06808 1007105000979 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105000980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105000981 DNA-binding site [nucleotide binding]; DNA binding site 1007105000982 FCD domain; Region: FCD; pfam07729 1007105000983 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1007105000984 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1007105000985 inhibitor site; inhibition site 1007105000986 active site 1007105000987 dimer interface [polypeptide binding]; other site 1007105000988 catalytic residue [active] 1007105000989 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105000990 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1007105000991 NAD(P) binding site [chemical binding]; other site 1007105000992 catalytic residues [active] 1007105000993 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1007105000994 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1007105000995 metal binding site [ion binding]; metal-binding site 1007105000996 putative dimer interface [polypeptide binding]; other site 1007105000997 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 1007105000998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105000999 DNA-binding site [nucleotide binding]; DNA binding site 1007105001000 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 1007105001001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105001002 homodimer interface [polypeptide binding]; other site 1007105001003 catalytic residue [active] 1007105001004 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1007105001005 ProQ/FINO family; Region: ProQ; pfam04352 1007105001006 carnitine operon protein CaiE; Provisional; Region: PRK13627 1007105001007 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1007105001008 putative trimer interface [polypeptide binding]; other site 1007105001009 putative metal binding site [ion binding]; other site 1007105001010 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1007105001011 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 1007105001012 phosphate binding site [ion binding]; other site 1007105001013 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105001014 active site 1007105001015 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1007105001016 Cytochrome P450; Region: p450; cl12078 1007105001017 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1007105001018 active site 1007105001019 DNA binding site [nucleotide binding] 1007105001020 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 1007105001021 DNA-binding site [nucleotide binding]; DNA binding site 1007105001022 RNA-binding motif; other site 1007105001023 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1007105001024 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 1007105001025 active site 1007105001026 purine riboside binding site [chemical binding]; other site 1007105001027 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 1007105001028 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105001029 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105001030 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1007105001031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105001032 NAD(P) binding site [chemical binding]; other site 1007105001033 active site 1007105001034 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1007105001035 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1007105001036 DNA binding site [nucleotide binding] 1007105001037 domain linker motif; other site 1007105001038 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1007105001039 putative dimerization interface [polypeptide binding]; other site 1007105001040 putative ligand binding site [chemical binding]; other site 1007105001041 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105001042 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 1007105001043 dimer interface [polypeptide binding]; other site 1007105001044 conserved gate region; other site 1007105001045 ABC-ATPase subunit interface; other site 1007105001046 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105001047 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 1007105001048 dimer interface [polypeptide binding]; other site 1007105001049 conserved gate region; other site 1007105001050 putative PBP binding loops; other site 1007105001051 ABC-ATPase subunit interface; other site 1007105001052 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105001053 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 1007105001054 substrate binding pocket [chemical binding]; other site 1007105001055 membrane-bound complex binding site; other site 1007105001056 hinge residues; other site 1007105001057 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105001058 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105001059 Walker A/P-loop; other site 1007105001060 ATP binding site [chemical binding]; other site 1007105001061 Q-loop/lid; other site 1007105001062 ABC transporter signature motif; other site 1007105001063 Walker B; other site 1007105001064 D-loop; other site 1007105001065 H-loop/switch region; other site 1007105001066 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1007105001067 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1007105001068 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1007105001069 substrate binding site [chemical binding]; other site 1007105001070 ATP binding site [chemical binding]; other site 1007105001071 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1007105001072 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1007105001073 dimerization interface [polypeptide binding]; other site 1007105001074 ligand binding site [chemical binding]; other site 1007105001075 NADP binding site [chemical binding]; other site 1007105001076 catalytic site [active] 1007105001077 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1007105001078 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1007105001079 active site 1007105001080 intersubunit interface [polypeptide binding]; other site 1007105001081 catalytic residue [active] 1007105001082 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1007105001083 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1007105001084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105001085 active site 1007105001086 Staphylococcal nuclease homologues; Region: SNc; smart00318 1007105001087 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1007105001088 Catalytic site; other site 1007105001089 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 1007105001090 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1007105001091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1007105001092 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 1007105001093 dimer interface [polypeptide binding]; other site 1007105001094 conserved gate region; other site 1007105001095 putative PBP binding loops; other site 1007105001096 ABC-ATPase subunit interface; other site 1007105001097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1007105001098 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 1007105001099 dimer interface [polypeptide binding]; other site 1007105001100 conserved gate region; other site 1007105001101 putative PBP binding loops; other site 1007105001102 ABC-ATPase subunit interface; other site 1007105001103 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1007105001104 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105001105 Walker A/P-loop; other site 1007105001106 ATP binding site [chemical binding]; other site 1007105001107 Q-loop/lid; other site 1007105001108 ABC transporter signature motif; other site 1007105001109 Walker B; other site 1007105001110 D-loop; other site 1007105001111 H-loop/switch region; other site 1007105001112 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105001113 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105001114 Walker A/P-loop; other site 1007105001115 ATP binding site [chemical binding]; other site 1007105001116 Q-loop/lid; other site 1007105001117 ABC transporter signature motif; other site 1007105001118 Walker B; other site 1007105001119 D-loop; other site 1007105001120 H-loop/switch region; other site 1007105001121 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105001122 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1007105001123 elongation factor P; Validated; Region: PRK00529 1007105001124 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1007105001125 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 1007105001126 RNA binding site [nucleotide binding]; other site 1007105001127 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 1007105001128 RNA binding site [nucleotide binding]; other site 1007105001129 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 1007105001130 Pirin-related protein [General function prediction only]; Region: COG1741 1007105001131 Pirin; Region: Pirin; pfam02678 1007105001132 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1007105001133 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 1007105001134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1007105001135 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1007105001136 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1007105001137 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1007105001138 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1007105001139 substrate binding site [chemical binding]; other site 1007105001140 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1007105001141 substrate binding site [chemical binding]; other site 1007105001142 ligand binding site [chemical binding]; other site 1007105001143 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1007105001144 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1007105001145 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1007105001146 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1007105001147 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1007105001148 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1007105001149 substrate binding site [chemical binding]; other site 1007105001150 ligand binding site [chemical binding]; other site 1007105001151 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1007105001152 substrate binding site [chemical binding]; other site 1007105001153 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1007105001154 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1007105001155 dimer interface [polypeptide binding]; other site 1007105001156 active site 1007105001157 citrylCoA binding site [chemical binding]; other site 1007105001158 oxalacetate/citrate binding site [chemical binding]; other site 1007105001159 coenzyme A binding site [chemical binding]; other site 1007105001160 catalytic triad [active] 1007105001161 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1007105001162 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1007105001163 tetramer interface [polypeptide binding]; other site 1007105001164 active site 1007105001165 Mg2+/Mn2+ binding site [ion binding]; other site 1007105001166 Propionate catabolism activator; Region: PrpR_N; pfam06506 1007105001167 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1007105001168 PAS domain; Region: PAS; smart00091 1007105001169 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 1007105001170 Walker A motif; other site 1007105001171 ATP binding site [chemical binding]; other site 1007105001172 Walker B motif; other site 1007105001173 arginine finger; other site 1007105001174 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1007105001175 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 1007105001176 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105001177 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105001178 malate dehydrogenase; Provisional; Region: PRK05442 1007105001179 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1007105001180 NAD(P) binding site [chemical binding]; other site 1007105001181 dimer interface [polypeptide binding]; other site 1007105001182 malate binding site [chemical binding]; other site 1007105001183 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1007105001184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105001185 DNA-binding site [nucleotide binding]; DNA binding site 1007105001186 UTRA domain; Region: UTRA; pfam07702 1007105001187 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 1007105001188 SdhD (CybS) interface [polypeptide binding]; other site 1007105001189 proximal heme binding site [chemical binding]; other site 1007105001190 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1007105001191 SdhC subunit interface [polypeptide binding]; other site 1007105001192 proximal heme binding site [chemical binding]; other site 1007105001193 cardiolipin binding site; other site 1007105001194 Iron-sulfur protein interface; other site 1007105001195 proximal quinone binding site [chemical binding]; other site 1007105001196 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1007105001197 L-aspartate oxidase; Provisional; Region: PRK06175 1007105001198 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1007105001199 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1007105001200 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1007105001201 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1007105001202 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 1007105001203 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1007105001204 dimer interface [polypeptide binding]; other site 1007105001205 active site 1007105001206 citrylCoA binding site [chemical binding]; other site 1007105001207 NADH binding [chemical binding]; other site 1007105001208 cationic pore residues; other site 1007105001209 oxalacetate/citrate binding site [chemical binding]; other site 1007105001210 coenzyme A binding site [chemical binding]; other site 1007105001211 catalytic triad [active] 1007105001212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105001213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105001214 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1007105001215 putative dimerization interface [polypeptide binding]; other site 1007105001216 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105001217 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1007105001218 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1007105001219 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1007105001220 putative NAD(P) binding site [chemical binding]; other site 1007105001221 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1007105001222 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1007105001223 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 1007105001224 TPP-binding site [chemical binding]; other site 1007105001225 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1007105001226 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1007105001227 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 1007105001228 E3 interaction surface; other site 1007105001229 lipoyl attachment site [posttranslational modification]; other site 1007105001230 e3 binding domain; Region: E3_binding; pfam02817 1007105001231 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105001232 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1007105001233 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105001234 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105001235 Predicted ATPase [General function prediction only]; Region: COG1485 1007105001236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001237 Walker A/P-loop; other site 1007105001238 ATP binding site [chemical binding]; other site 1007105001239 Q-loop/lid; other site 1007105001240 ABC transporter signature motif; other site 1007105001241 Walker B; other site 1007105001242 D-loop; other site 1007105001243 H-loop/switch region; other site 1007105001244 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1007105001245 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1007105001246 active site 1007105001247 HIGH motif; other site 1007105001248 dimer interface [polypeptide binding]; other site 1007105001249 KMSKS motif; other site 1007105001250 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1007105001251 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1007105001252 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1007105001253 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1007105001254 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1007105001255 RNA binding site [nucleotide binding]; other site 1007105001256 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1007105001257 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1007105001258 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1007105001259 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1007105001260 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1007105001261 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 1007105001262 RNA binding surface [nucleotide binding]; other site 1007105001263 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1007105001264 active site 1007105001265 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1007105001266 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1007105001267 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1007105001268 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1007105001269 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1007105001270 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1007105001271 NAD(P) binding site [chemical binding]; other site 1007105001272 homotetramer interface [polypeptide binding]; other site 1007105001273 homodimer interface [polypeptide binding]; other site 1007105001274 active site 1007105001275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1007105001276 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1007105001277 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1007105001278 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1007105001279 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1007105001280 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1007105001281 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1007105001282 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 1007105001283 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1007105001284 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1007105001285 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 1007105001286 RNA binding surface [nucleotide binding]; other site 1007105001287 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1007105001288 probable active site [active] 1007105001289 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1007105001290 Sm and related proteins; Region: Sm_like; cl00259 1007105001291 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1007105001292 putative oligomer interface [polypeptide binding]; other site 1007105001293 putative RNA binding site [nucleotide binding]; other site 1007105001294 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1007105001295 NusA N-terminal domain; Region: NusA_N; pfam08529 1007105001296 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 1007105001297 RNA binding site [nucleotide binding]; other site 1007105001298 homodimer interface [polypeptide binding]; other site 1007105001299 NusA-like KH domain; Region: KH_5; pfam13184 1007105001300 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 1007105001301 G-X-X-G motif; other site 1007105001302 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1007105001303 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1007105001304 translation initiation factor IF-2; Region: IF-2; TIGR00487 1007105001305 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1007105001306 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1007105001307 G1 box; other site 1007105001308 putative GEF interaction site [polypeptide binding]; other site 1007105001309 GTP/Mg2+ binding site [chemical binding]; other site 1007105001310 Switch I region; other site 1007105001311 G2 box; other site 1007105001312 G3 box; other site 1007105001313 Switch II region; other site 1007105001314 G4 box; other site 1007105001315 G5 box; other site 1007105001316 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 1007105001317 Translation-initiation factor 2; Region: IF-2; pfam11987 1007105001318 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 1007105001319 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1007105001320 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 1007105001321 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1007105001322 RNA binding site [nucleotide binding]; other site 1007105001323 active site 1007105001324 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1007105001325 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1007105001326 G1 box; other site 1007105001327 putative GEF interaction site [polypeptide binding]; other site 1007105001328 GTP/Mg2+ binding site [chemical binding]; other site 1007105001329 Switch I region; other site 1007105001330 G2 box; other site 1007105001331 G3 box; other site 1007105001332 Switch II region; other site 1007105001333 G4 box; other site 1007105001334 G5 box; other site 1007105001335 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 1007105001336 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 1007105001337 succinic semialdehyde dehydrogenase; Region: PLN02278 1007105001338 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1007105001339 tetramerization interface [polypeptide binding]; other site 1007105001340 NAD(P) binding site [chemical binding]; other site 1007105001341 catalytic residues [active] 1007105001342 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1007105001343 DNA polymerase I; Provisional; Region: PRK05755 1007105001344 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1007105001345 active site 1007105001346 putative 5' ssDNA interaction site; other site 1007105001347 metal binding site 3; metal-binding site 1007105001348 metal binding site 1 [ion binding]; metal-binding site 1007105001349 metal binding site 2 [ion binding]; metal-binding site 1007105001350 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1007105001351 putative DNA binding site [nucleotide binding]; other site 1007105001352 putative metal binding site [ion binding]; other site 1007105001353 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 1007105001354 active site 1007105001355 catalytic site [active] 1007105001356 substrate binding site [chemical binding]; other site 1007105001357 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1007105001358 active site 1007105001359 DNA binding site [nucleotide binding] 1007105001360 catalytic site [active] 1007105001361 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1007105001362 heat shock protein HtpX; Provisional; Region: PRK05457 1007105001363 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105001364 EamA-like transporter family; Region: EamA; pfam00892 1007105001365 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1007105001366 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 1007105001367 active site residue [active] 1007105001368 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 1007105001369 active site residue [active] 1007105001370 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1007105001371 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1007105001372 [2Fe-2S] cluster binding site [ion binding]; other site 1007105001373 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1007105001374 alpha subunit interface [polypeptide binding]; other site 1007105001375 active site 1007105001376 substrate binding site [chemical binding]; other site 1007105001377 Fe binding site [ion binding]; other site 1007105001378 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1007105001379 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1007105001380 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1007105001381 substrate binding pocket [chemical binding]; other site 1007105001382 chain length determination region; other site 1007105001383 substrate-Mg2+ binding site; other site 1007105001384 catalytic residues [active] 1007105001385 aspartate-rich region 1; other site 1007105001386 active site lid residues [active] 1007105001387 aspartate-rich region 2; other site 1007105001388 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1007105001389 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 1007105001390 TPP-binding site; other site 1007105001391 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 1007105001392 PYR/PP interface [polypeptide binding]; other site 1007105001393 dimer interface [polypeptide binding]; other site 1007105001394 TPP binding site [chemical binding]; other site 1007105001395 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105001396 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1007105001397 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1007105001398 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1007105001399 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1007105001400 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1007105001401 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1007105001402 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1007105001403 replicative DNA helicase; Provisional; Region: PRK07004 1007105001404 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1007105001405 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 1007105001406 Walker A motif; other site 1007105001407 ATP binding site [chemical binding]; other site 1007105001408 Walker B motif; other site 1007105001409 DNA binding loops [nucleotide binding] 1007105001410 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1007105001411 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1007105001412 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1007105001413 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1007105001414 putative active site [active] 1007105001415 PhoH-like protein; Region: PhoH; pfam02562 1007105001416 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1007105001417 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 1007105001418 catalytic triad [active] 1007105001419 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; cl00182 1007105001420 aminotransferase; Validated; Region: PRK08175 1007105001421 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 1007105001422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105001423 homodimer interface [polypeptide binding]; other site 1007105001424 catalytic residue [active] 1007105001425 homoserine dehydrogenase; Provisional; Region: PRK06349 1007105001426 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1007105001427 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1007105001428 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 1007105001429 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1007105001430 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 1007105001431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105001432 catalytic residue [active] 1007105001433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1007105001434 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1007105001435 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1007105001436 active site lid residues [active] 1007105001437 substrate binding pocket [chemical binding]; other site 1007105001438 catalytic residues [active] 1007105001439 substrate-Mg2+ binding site; other site 1007105001440 aspartate-rich region 1; other site 1007105001441 aspartate-rich region 2; other site 1007105001442 squalene synthase HpnC; Region: HpnC; TIGR03464 1007105001443 substrate binding pocket [chemical binding]; other site 1007105001444 substrate-Mg2+ binding site; other site 1007105001445 aspartate-rich region 1; other site 1007105001446 aspartate-rich region 2; other site 1007105001447 alanine racemase; Reviewed; Region: alr; PRK00053 1007105001448 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1007105001449 active site 1007105001450 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105001451 substrate binding site [chemical binding]; other site 1007105001452 catalytic residues [active] 1007105001453 dimer interface [polypeptide binding]; other site 1007105001454 short chain dehydrogenase; Provisional; Region: PRK07577 1007105001455 classical (c) SDRs; Region: SDR_c; cd05233 1007105001456 NAD(P) binding site [chemical binding]; other site 1007105001457 active site 1007105001458 DNA repair protein RadA; Provisional; Region: PRK11823 1007105001459 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1007105001460 Walker A motif/ATP binding site; other site 1007105001461 ATP binding site [chemical binding]; other site 1007105001462 Walker B motif; other site 1007105001463 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1007105001464 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105001465 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1007105001466 FtsX-like permease family; Region: FtsX; pfam02687 1007105001467 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1007105001468 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1007105001469 active site 1007105001470 substrate binding site [chemical binding]; other site 1007105001471 ATP binding site [chemical binding]; other site 1007105001472 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1007105001473 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1007105001474 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001475 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1007105001476 Walker A/P-loop; other site 1007105001477 ATP binding site [chemical binding]; other site 1007105001478 Q-loop/lid; other site 1007105001479 ABC transporter signature motif; other site 1007105001480 Walker B; other site 1007105001481 D-loop; other site 1007105001482 H-loop/switch region; other site 1007105001483 TOBE domain; Region: TOBE_2; pfam08402 1007105001484 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1007105001485 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 1007105001486 dimer interface [polypeptide binding]; other site 1007105001487 conserved gate region; other site 1007105001488 putative PBP binding loops; other site 1007105001489 ABC-ATPase subunit interface; other site 1007105001490 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1007105001491 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 1007105001492 dimer interface [polypeptide binding]; other site 1007105001493 conserved gate region; other site 1007105001494 putative PBP binding loops; other site 1007105001495 ABC-ATPase subunit interface; other site 1007105001496 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1007105001497 ArsC family; Region: ArsC; pfam03960 1007105001498 putative catalytic residues [active] 1007105001499 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 1007105001500 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1007105001501 active site 1007105001502 dimer interface [polypeptide binding]; other site 1007105001503 transcriptional regulator PhoU; Provisional; Region: PRK11115 1007105001504 PhoU domain; Region: PhoU; pfam01895 1007105001505 PhoU domain; Region: PhoU; pfam01895 1007105001506 oxidative damage protection protein; Provisional; Region: PRK05408 1007105001507 PAS domain; Region: PAS_9; pfam13426 1007105001508 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 1007105001509 putative active site [active] 1007105001510 heme pocket [chemical binding]; other site 1007105001511 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 1007105001512 DNA binding residues [nucleotide binding] 1007105001513 dimerization interface [polypeptide binding]; other site 1007105001514 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 1007105001515 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1007105001516 active site 1007105001517 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1007105001518 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105001519 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1007105001520 acyl-activating enzyme (AAE) consensus motif; other site 1007105001521 acyl-activating enzyme (AAE) consensus motif; other site 1007105001522 putative AMP binding site [chemical binding]; other site 1007105001523 putative active site [active] 1007105001524 putative CoA binding site [chemical binding]; other site 1007105001525 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105001526 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105001527 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105001528 DctM-like transporters; Region: DctM; pfam06808 1007105001529 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1007105001530 classical (c) SDRs; Region: SDR_c; cd05233 1007105001531 NAD(P) binding site [chemical binding]; other site 1007105001532 active site 1007105001533 N-acetylglutamate synthase; Validated; Region: PRK05279 1007105001534 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1007105001535 putative feedback inhibition sensing region; other site 1007105001536 putative nucleotide binding site [chemical binding]; other site 1007105001537 putative substrate binding site [chemical binding]; other site 1007105001538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105001539 Coenzyme A binding pocket [chemical binding]; other site 1007105001540 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1007105001541 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 1007105001542 ATP binding site [chemical binding]; other site 1007105001543 putative Mg++ binding site [ion binding]; other site 1007105001544 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 1007105001545 nucleotide binding region [chemical binding]; other site 1007105001546 ATP-binding site [chemical binding]; other site 1007105001547 Helicase associated domain (HA2); Region: HA2; pfam04408 1007105001548 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1007105001549 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1007105001550 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1007105001551 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1007105001552 putative active site [active] 1007105001553 putative PHP Thumb interface [polypeptide binding]; other site 1007105001554 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 1007105001555 generic binding surface I; other site 1007105001556 generic binding surface II; other site 1007105001557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105001558 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 1007105001559 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1007105001560 putative active site [active] 1007105001561 putative metal binding site [ion binding]; other site 1007105001562 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1007105001563 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1007105001564 putative metal binding site; other site 1007105001565 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 1007105001566 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105001567 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1007105001568 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1007105001569 putative active site [active] 1007105001570 putative metal binding site [ion binding]; other site 1007105001571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105001572 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 1007105001573 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1007105001574 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1007105001575 putative metal binding site [ion binding]; other site 1007105001576 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1007105001577 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 1007105001578 putative active site [active] 1007105001579 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1007105001580 putative active site [active] 1007105001581 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1007105001582 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1007105001583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001584 Walker A/P-loop; other site 1007105001585 ATP binding site [chemical binding]; other site 1007105001586 Q-loop/lid; other site 1007105001587 ABC transporter signature motif; other site 1007105001588 Walker B; other site 1007105001589 D-loop; other site 1007105001590 H-loop/switch region; other site 1007105001591 ribonuclease G; Provisional; Region: PRK11712 1007105001592 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 1007105001593 homodimer interface [polypeptide binding]; other site 1007105001594 oligonucleotide binding site [chemical binding]; other site 1007105001595 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1007105001596 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 1007105001597 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1007105001598 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1007105001599 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1007105001600 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 1007105001601 putative substrate translocation pore; other site 1007105001602 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 1007105001603 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1007105001604 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105001605 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 1007105001606 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1007105001607 MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar...; Region: MIT; cl00299 1007105001608 MarR family; Region: MarR_2; cl17246 1007105001609 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1007105001610 EamA-like transporter family; Region: EamA; pfam00892 1007105001611 EamA-like transporter family; Region: EamA; pfam00892 1007105001612 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1007105001613 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1007105001614 nucleophile elbow; other site 1007105001615 Patatin phospholipase; Region: DUF3734; pfam12536 1007105001616 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1007105001617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105001618 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 1007105001619 putative dimerization interface [polypeptide binding]; other site 1007105001620 Predicted membrane protein [Function unknown]; Region: COG2855 1007105001621 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1007105001622 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1007105001623 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1007105001624 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1007105001625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001626 ABC transporter signature motif; other site 1007105001627 Walker B; other site 1007105001628 D-loop; other site 1007105001629 H-loop/switch region; other site 1007105001630 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1007105001631 Tautomerase enzyme; Region: Tautomerase; pfam01361 1007105001632 active site 1 [active] 1007105001633 dimer interface [polypeptide binding]; other site 1007105001634 hexamer interface [polypeptide binding]; other site 1007105001635 active site 2 [active] 1007105001636 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1007105001637 dimer interface [polypeptide binding]; other site 1007105001638 hexamer interface [polypeptide binding]; other site 1007105001639 active site 2 [active] 1007105001640 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1007105001641 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1007105001642 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 1007105001643 Walker A motif; other site 1007105001644 ATP binding site [chemical binding]; other site 1007105001645 Walker B motif; other site 1007105001646 arginine finger; other site 1007105001647 Hemerythrin-like domain; Region: Hr-like; cd12108 1007105001648 Fe binding site [ion binding]; other site 1007105001649 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1007105001650 putative transporter; Provisional; Region: PRK11660 1007105001651 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1007105001652 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1007105001653 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 1007105001654 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1007105001655 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1007105001656 TM2 domain; Region: TM2; pfam05154 1007105001657 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1007105001658 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 1007105001659 S-adenosylmethionine binding site [chemical binding]; other site 1007105001660 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 1007105001661 non-specific DNA binding site [nucleotide binding]; other site 1007105001662 salt bridge; other site 1007105001663 sequence-specific DNA binding site [nucleotide binding]; other site 1007105001664 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1007105001665 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1007105001666 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1007105001667 glycerol kinase; Provisional; Region: glpK; PRK00047 1007105001668 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1007105001669 N- and C-terminal domain interface [polypeptide binding]; other site 1007105001670 active site 1007105001671 MgATP binding site [chemical binding]; other site 1007105001672 catalytic site [active] 1007105001673 metal binding site [ion binding]; metal-binding site 1007105001674 glycerol binding site [chemical binding]; other site 1007105001675 homotetramer interface [polypeptide binding]; other site 1007105001676 homodimer interface [polypeptide binding]; other site 1007105001677 FBP binding site [chemical binding]; other site 1007105001678 protein IIAGlc interface [polypeptide binding]; other site 1007105001679 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1007105001680 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1007105001681 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1007105001682 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1007105001683 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1007105001684 Walker A/P-loop; other site 1007105001685 ATP binding site [chemical binding]; other site 1007105001686 Q-loop/lid; other site 1007105001687 ABC transporter signature motif; other site 1007105001688 Walker B; other site 1007105001689 D-loop; other site 1007105001690 H-loop/switch region; other site 1007105001691 TOBE domain; Region: TOBE_2; pfam08402 1007105001692 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1007105001693 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1007105001694 Walker A/P-loop; other site 1007105001695 ATP binding site [chemical binding]; other site 1007105001696 Q-loop/lid; other site 1007105001697 ABC transporter signature motif; other site 1007105001698 Walker B; other site 1007105001699 D-loop; other site 1007105001700 H-loop/switch region; other site 1007105001701 TOBE domain; Region: TOBE_2; pfam08402 1007105001702 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 1007105001703 putative PBP binding loops; other site 1007105001704 ABC-ATPase subunit interface; other site 1007105001705 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1007105001706 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 1007105001707 dimer interface [polypeptide binding]; other site 1007105001708 conserved gate region; other site 1007105001709 putative PBP binding loops; other site 1007105001710 ABC-ATPase subunit interface; other site 1007105001711 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1007105001712 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1007105001713 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1007105001714 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1007105001715 NlpC/P60 family; Region: NLPC_P60; pfam00877 1007105001716 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1007105001717 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105001718 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1007105001719 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1007105001720 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105001721 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105001722 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1007105001723 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1007105001724 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105001725 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1007105001726 hypothetical protein; Provisional; Region: PRK09040 1007105001727 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105001728 ligand binding site [chemical binding]; other site 1007105001729 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1007105001730 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1007105001731 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1007105001732 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1007105001733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001734 Walker A/P-loop; other site 1007105001735 ATP binding site [chemical binding]; other site 1007105001736 Q-loop/lid; other site 1007105001737 ABC transporter signature motif; other site 1007105001738 Walker B; other site 1007105001739 D-loop; other site 1007105001740 H-loop/switch region; other site 1007105001741 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1007105001742 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 1007105001743 dimer interface [polypeptide binding]; other site 1007105001744 conserved gate region; other site 1007105001745 ABC-ATPase subunit interface; other site 1007105001746 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105001747 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 1007105001748 dimer interface [polypeptide binding]; other site 1007105001749 conserved gate region; other site 1007105001750 putative PBP binding loops; other site 1007105001751 ABC-ATPase subunit interface; other site 1007105001752 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 1007105001753 dimer interface [polypeptide binding]; other site 1007105001754 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105001755 metal binding site [ion binding]; metal-binding site 1007105001756 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 1007105001757 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105001758 substrate binding pocket [chemical binding]; other site 1007105001759 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105001760 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 1007105001761 membrane-bound complex binding site; other site 1007105001762 hinge residues; other site 1007105001763 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105001764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105001765 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1007105001766 Fic/DOC family; Region: Fic; cl00960 1007105001767 Superfamily II helicase [General function prediction only]; Region: COG1204 1007105001768 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 1007105001769 ATP binding site [chemical binding]; other site 1007105001770 putative Mg++ binding site [ion binding]; other site 1007105001771 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1007105001772 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 1007105001773 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1007105001774 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1007105001775 catalytic residues [active] 1007105001776 catalytic nucleophile [active] 1007105001777 Presynaptic Site I dimer interface [polypeptide binding]; other site 1007105001778 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1007105001779 Synaptic Flat tetramer interface [polypeptide binding]; other site 1007105001780 Synaptic Site I dimer interface [polypeptide binding]; other site 1007105001781 DNA binding site [nucleotide binding] 1007105001782 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1007105001783 DNA-binding interface [nucleotide binding]; DNA binding site 1007105001784 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1007105001785 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1007105001786 DNA binding residues [nucleotide binding] 1007105001787 dimer interface [polypeptide binding]; other site 1007105001788 mercury binding site [ion binding]; other site 1007105001789 putative mercuric transport protein; Provisional; Region: PRK13751 1007105001790 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 1007105001791 metal-binding site [ion binding] 1007105001792 putative mercury transport protein MerC; Provisional; Region: PRK13755 1007105001793 putative mercuric reductase; Provisional; Region: PRK13748 1007105001794 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 1007105001795 metal-binding site [ion binding] 1007105001796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105001797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105001798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105001799 transcriptional regulator MerD; Provisional; Region: PRK13749 1007105001800 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 1007105001801 DNA binding residues [nucleotide binding] 1007105001802 putative dimer interface [polypeptide binding]; other site 1007105001803 putative mercury resistance protein; Provisional; Region: PRK13747 1007105001804 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1007105001805 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1007105001806 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1007105001807 catalytic residues [active] 1007105001808 catalytic nucleophile [active] 1007105001809 Presynaptic Site I dimer interface [polypeptide binding]; other site 1007105001810 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1007105001811 Synaptic Flat tetramer interface [polypeptide binding]; other site 1007105001812 Synaptic Site I dimer interface [polypeptide binding]; other site 1007105001813 DNA binding site [nucleotide binding] 1007105001814 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1007105001815 DNA-binding interface [nucleotide binding]; DNA binding site 1007105001816 TniQ; Region: TniQ; pfam06527 1007105001817 Bacterial TniB protein; Region: TniB; pfam05621 1007105001818 Integrase core domain; Region: rve; pfam00665 1007105001819 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1007105001820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105001821 Walker A/P-loop; other site 1007105001822 ATP binding site [chemical binding]; other site 1007105001823 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 1007105001824 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 1007105001825 TrfA protein; Region: TrfA; pfam07042 1007105001826 Replication initiator protein A; Region: RPA; cl17860 1007105001827 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105001828 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105001829 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105001830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105001831 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1007105001832 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 1007105001833 active site 1007105001834 FMN binding site [chemical binding]; other site 1007105001835 substrate binding site [chemical binding]; other site 1007105001836 3Fe-4S cluster binding site [ion binding]; other site 1007105001837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105001838 Coenzyme A binding pocket [chemical binding]; other site 1007105001839 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105001840 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105001841 putative ligand binding site [chemical binding]; other site 1007105001842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105001843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105001844 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1007105001845 dimerization interface [polypeptide binding]; other site 1007105001846 ribonuclease R; Region: RNase_R; TIGR02063 1007105001847 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 1007105001848 RNB domain; Region: RNB; pfam00773 1007105001849 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 1007105001850 RNA binding site [nucleotide binding]; other site 1007105001851 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1007105001852 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1007105001853 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1007105001854 hypothetical protein; Provisional; Region: PRK05939 1007105001855 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 1007105001856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105001857 catalytic residue [active] 1007105001858 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 1007105001859 IHF dimer interface [polypeptide binding]; other site 1007105001860 IHF - DNA interface [nucleotide binding]; other site 1007105001861 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 1007105001862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105001863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105001864 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 1007105001865 dimerization interface [polypeptide binding]; other site 1007105001866 amidase; Provisional; Region: PRK07486 1007105001867 Amidase; Region: Amidase; cl11426 1007105001868 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105001869 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1007105001870 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1007105001871 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1007105001872 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1007105001873 TolR protein; Region: tolR; TIGR02801 1007105001874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105001875 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 1007105001876 active site 1007105001877 phosphorylation site [posttranslational modification] 1007105001878 intermolecular recognition site; other site 1007105001879 dimerization interface [polypeptide binding]; other site 1007105001880 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 1007105001881 DNA binding site [nucleotide binding] 1007105001882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105001883 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1007105001884 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 1007105001885 dimer interface [polypeptide binding]; other site 1007105001886 phosphorylation site [posttranslational modification] 1007105001887 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 1007105001888 ATP binding site [chemical binding]; other site 1007105001889 Mg2+ binding site [ion binding]; other site 1007105001890 G-X-G motif; other site 1007105001891 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1007105001892 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1007105001893 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1007105001894 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1007105001895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105001896 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1007105001897 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1007105001898 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1007105001899 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105001900 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1007105001901 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 1007105001902 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1007105001903 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 1007105001904 FeS/SAM binding site; other site 1007105001905 HemN C-terminal domain; Region: HemN_C; pfam06969 1007105001906 Protein of unknown function (DUF454); Region: DUF454; pfam04304 1007105001907 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1007105001908 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 1007105001909 ligand binding site [chemical binding]; other site 1007105001910 flexible hinge region; other site 1007105001911 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1007105001912 putative switch regulator; other site 1007105001913 non-specific DNA interactions [nucleotide binding]; other site 1007105001914 DNA binding site [nucleotide binding] 1007105001915 sequence specific DNA binding site [nucleotide binding]; other site 1007105001916 putative cAMP binding site [chemical binding]; other site 1007105001917 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1007105001918 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1007105001919 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1007105001920 FMN binding site [chemical binding]; other site 1007105001921 substrate binding site [chemical binding]; other site 1007105001922 putative catalytic residue [active] 1007105001923 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1007105001924 Peptidase family U32; Region: Peptidase_U32; pfam01136 1007105001925 putative protease; Provisional; Region: PRK15447 1007105001926 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1007105001927 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1007105001928 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1007105001929 SCP-2 sterol transfer family; Region: SCP2; cl01225 1007105001930 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1007105001931 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 1007105001932 FeS/SAM binding site; other site 1007105001933 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1007105001934 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1007105001935 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1007105001936 effector binding site; other site 1007105001937 active site 1007105001938 Zn binding site [ion binding]; other site 1007105001939 glycine loop; other site 1007105001940 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1007105001941 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 1007105001942 Na binding site [ion binding]; other site 1007105001943 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 1007105001944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105001945 NAD(P) binding site [chemical binding]; other site 1007105001946 active site 1007105001947 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1007105001948 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1007105001949 active site 1007105001950 non-prolyl cis peptide bond; other site 1007105001951 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1007105001952 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1007105001953 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1007105001954 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1007105001955 dimer interface [polypeptide binding]; other site 1007105001956 active site 1007105001957 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105001958 catalytic residues [active] 1007105001959 substrate binding site [chemical binding]; other site 1007105001960 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 1007105001961 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1007105001962 non-specific DNA binding site [nucleotide binding]; other site 1007105001963 salt bridge; other site 1007105001964 sequence-specific DNA binding site [nucleotide binding]; other site 1007105001965 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1007105001966 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1007105001967 nudix motif; other site 1007105001968 short chain dehydrogenase; Provisional; Region: PRK07577 1007105001969 classical (c) SDRs; Region: SDR_c; cd05233 1007105001970 NAD(P) binding site [chemical binding]; other site 1007105001971 active site 1007105001972 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105001973 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1007105001974 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1007105001975 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105001976 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105001977 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1007105001978 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 1007105001979 P-loop; other site 1007105001980 Magnesium ion binding site [ion binding]; other site 1007105001981 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 1007105001982 Magnesium ion binding site [ion binding]; other site 1007105001983 CHAD domain; Region: CHAD; pfam05235 1007105001984 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1007105001985 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105001986 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105001987 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105001988 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105001989 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105001990 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105001991 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1007105001992 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1007105001993 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1007105001994 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105001995 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1007105001996 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105001997 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105001998 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105001999 DctM-like transporters; Region: DctM; pfam06808 1007105002000 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105002001 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105002002 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105002003 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105002004 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105002005 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1007105002006 active site 1007105002007 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 1007105002008 putative active site [active] 1007105002009 putative catalytic site [active] 1007105002010 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 1007105002011 putative substrate translocation pore; other site 1007105002012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105002013 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 1007105002014 active site 2 [active] 1007105002015 active site 1 [active] 1007105002016 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1007105002017 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105002018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105002019 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1007105002020 Walker A/P-loop; other site 1007105002021 ATP binding site [chemical binding]; other site 1007105002022 Q-loop/lid; other site 1007105002023 ABC transporter signature motif; other site 1007105002024 Walker B; other site 1007105002025 D-loop; other site 1007105002026 H-loop/switch region; other site 1007105002027 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1007105002028 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1007105002029 active site 1007105002030 tetramer interface [polypeptide binding]; other site 1007105002031 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1007105002032 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1007105002033 DNA binding site [nucleotide binding] 1007105002034 domain linker motif; other site 1007105002035 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1007105002036 putative dimerization interface [polypeptide binding]; other site 1007105002037 putative ligand binding site [chemical binding]; other site 1007105002038 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 1007105002039 active site clefts [active] 1007105002040 zinc binding site [ion binding]; other site 1007105002041 dimer interface [polypeptide binding]; other site 1007105002042 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1007105002043 Peptidase family M48; Region: Peptidase_M48; cl12018 1007105002044 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1007105002045 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1007105002046 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1007105002047 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 1007105002048 argininosuccinate synthase; Validated; Region: PRK05370 1007105002049 argininosuccinate synthase; Provisional; Region: PRK13820 1007105002050 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1007105002051 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1007105002052 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1007105002053 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1007105002054 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1007105002055 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1007105002056 putative ligand binding site [chemical binding]; other site 1007105002057 NAD binding site [chemical binding]; other site 1007105002058 catalytic site [active] 1007105002059 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1007105002060 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1007105002061 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1007105002062 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1007105002063 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1007105002064 NAD binding site [chemical binding]; other site 1007105002065 homodimer interface [polypeptide binding]; other site 1007105002066 homotetramer interface [polypeptide binding]; other site 1007105002067 active site 1007105002068 adenylate kinase; Reviewed; Region: adk; PRK00279 1007105002069 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 1007105002070 AMP-binding site [chemical binding]; other site 1007105002071 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1007105002072 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1007105002073 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1007105002074 Ligand binding site; other site 1007105002075 oligomer interface; other site 1007105002076 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1007105002077 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1007105002078 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1007105002079 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1007105002080 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1007105002081 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1007105002082 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1007105002083 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 1007105002084 generic binding surface II; other site 1007105002085 generic binding surface I; other site 1007105002086 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1007105002087 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1007105002088 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1007105002089 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1007105002090 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 1007105002091 dimer interface [polypeptide binding]; other site 1007105002092 active site 1007105002093 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1007105002094 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 1007105002095 DNA-binding site [nucleotide binding]; DNA binding site 1007105002096 RNA-binding motif; other site 1007105002097 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1007105002098 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1007105002099 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 1007105002100 Walker A motif; other site 1007105002101 ATP binding site [chemical binding]; other site 1007105002102 Walker B motif; other site 1007105002103 arginine finger; other site 1007105002104 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 1007105002105 Walker A motif; other site 1007105002106 ATP binding site [chemical binding]; other site 1007105002107 Walker B motif; other site 1007105002108 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1007105002109 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1007105002110 Paraquat-inducible protein A; Region: PqiA; pfam04403 1007105002111 Paraquat-inducible protein A; Region: PqiA; pfam04403 1007105002112 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1007105002113 mce related protein; Region: MCE; pfam02470 1007105002114 mce related protein; Region: MCE; pfam02470 1007105002115 mce related protein; Region: MCE; pfam02470 1007105002116 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1007105002117 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1007105002118 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1007105002119 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1007105002120 Glutamate binding site [chemical binding]; other site 1007105002121 NAD binding site [chemical binding]; other site 1007105002122 catalytic residues [active] 1007105002123 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1007105002124 NAD(P) binding site [chemical binding]; other site 1007105002125 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105002126 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1007105002127 dimerization interface [polypeptide binding]; other site 1007105002128 ligand binding site [chemical binding]; other site 1007105002129 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105002130 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105002131 TM-ABC transporter signature motif; other site 1007105002132 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105002133 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105002134 TM-ABC transporter signature motif; other site 1007105002135 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105002136 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105002137 Walker A/P-loop; other site 1007105002138 ATP binding site [chemical binding]; other site 1007105002139 Q-loop/lid; other site 1007105002140 ABC transporter signature motif; other site 1007105002141 Walker B; other site 1007105002142 D-loop; other site 1007105002143 H-loop/switch region; other site 1007105002144 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105002145 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105002146 Walker A/P-loop; other site 1007105002147 ATP binding site [chemical binding]; other site 1007105002148 Q-loop/lid; other site 1007105002149 ABC transporter signature motif; other site 1007105002150 Walker B; other site 1007105002151 D-loop; other site 1007105002152 H-loop/switch region; other site 1007105002153 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1007105002154 trimer interface [polypeptide binding]; other site 1007105002155 active site 1007105002156 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1007105002157 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1007105002158 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1007105002159 Flavoprotein; Region: Flavoprotein; pfam02441 1007105002160 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1007105002161 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1007105002162 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1007105002163 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1007105002164 active site 1007105002165 HIGH motif; other site 1007105002166 nucleotide binding site [chemical binding]; other site 1007105002167 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1007105002168 active site 1007105002169 KMSKS motif; other site 1007105002170 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1007105002171 tRNA binding surface [nucleotide binding]; other site 1007105002172 anticodon binding site; other site 1007105002173 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1007105002174 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1007105002175 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1007105002176 active site 1007105002177 Riboflavin kinase; Region: Flavokinase; smart00904 1007105002178 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1007105002179 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1007105002180 active site 1007105002181 substrate binding site [chemical binding]; other site 1007105002182 cosubstrate binding site; other site 1007105002183 catalytic site [active] 1007105002184 16S rRNA methyltransferase B; Provisional; Region: PRK14901 1007105002185 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1007105002186 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1007105002187 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 1007105002188 Di-iron ligands [ion binding]; other site 1007105002189 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 1007105002190 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105002191 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1007105002192 Part of AAA domain; Region: AAA_19; pfam13245 1007105002193 Family description; Region: UvrD_C_2; pfam13538 1007105002194 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1007105002195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002196 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002197 ABC transporter; Region: ABC_tran_2; pfam12848 1007105002198 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002199 HemK family putative methylases; Region: hemK_fam; TIGR00536 1007105002200 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 1007105002201 S-adenosylmethionine binding site [chemical binding]; other site 1007105002202 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1007105002203 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1007105002204 metal binding site [ion binding]; metal-binding site 1007105002205 dimer interface [polypeptide binding]; other site 1007105002206 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1007105002207 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 1007105002208 trimer interface [polypeptide binding]; other site 1007105002209 active site 1007105002210 substrate binding site [chemical binding]; other site 1007105002211 CoA binding site [chemical binding]; other site 1007105002212 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1007105002213 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 1007105002214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105002215 homodimer interface [polypeptide binding]; other site 1007105002216 catalytic residue [active] 1007105002217 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1007105002218 putative acyl-acceptor binding pocket; other site 1007105002219 trigger factor; Provisional; Region: tig; PRK01490 1007105002220 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1007105002221 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1007105002222 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1007105002223 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1007105002224 oligomer interface [polypeptide binding]; other site 1007105002225 active site residues [active] 1007105002226 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1007105002227 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1007105002228 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1007105002229 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 1007105002230 Walker A motif; other site 1007105002231 ATP binding site [chemical binding]; other site 1007105002232 Walker B motif; other site 1007105002233 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1007105002234 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1007105002235 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1007105002236 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1007105002237 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 1007105002238 Walker A motif; other site 1007105002239 ATP binding site [chemical binding]; other site 1007105002240 Walker B motif; other site 1007105002241 arginine finger; other site 1007105002242 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1007105002243 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1007105002244 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1007105002245 YcfA-like protein; Region: YcfA; pfam07927 1007105002246 LexA repressor; Validated; Region: PRK00215 1007105002247 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1007105002248 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 1007105002249 Catalytic site [active] 1007105002250 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1007105002251 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 1007105002252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105002253 homodimer interface [polypeptide binding]; other site 1007105002254 catalytic residue [active] 1007105002255 excinuclease ABC subunit B; Provisional; Region: PRK05298 1007105002256 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 1007105002257 ATP binding site [chemical binding]; other site 1007105002258 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 1007105002259 nucleotide binding region [chemical binding]; other site 1007105002260 ATP-binding site [chemical binding]; other site 1007105002261 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1007105002262 UvrB/uvrC motif; Region: UVR; pfam02151 1007105002263 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1007105002264 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1007105002265 active site 1007105002266 Predicted transcriptional regulator [Transcription]; Region: COG1959 1007105002267 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1007105002268 cysteine desulfurase; Provisional; Region: PRK14012 1007105002269 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1007105002270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105002271 catalytic residue [active] 1007105002272 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1007105002273 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1007105002274 trimerization site [polypeptide binding]; other site 1007105002275 active site 1007105002276 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1007105002277 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105002278 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1007105002279 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105002280 transcriptional activator FlhD; Provisional; Region: PRK02909 1007105002281 transcriptional activator FlhC; Provisional; Region: PRK12722 1007105002282 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1007105002283 flagellar motor protein MotA; Validated; Region: PRK09110 1007105002284 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1007105002285 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1007105002286 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105002287 ligand binding site [chemical binding]; other site 1007105002288 chemotaxis protein CheA; Provisional; Region: PRK10547 1007105002289 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1007105002290 putative binding surface; other site 1007105002291 active site 1007105002292 CheY binding; Region: CheY-binding; pfam09078 1007105002293 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1007105002294 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 1007105002295 ATP binding site [chemical binding]; other site 1007105002296 Mg2+ binding site [ion binding]; other site 1007105002297 G-X-G motif; other site 1007105002298 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1007105002299 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1007105002300 putative CheA interaction surface; other site 1007105002301 methyl-accepting protein IV; Provisional; Region: PRK09793 1007105002302 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1007105002303 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 1007105002304 dimerization interface [polypeptide binding]; other site 1007105002305 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1007105002306 dimer interface [polypeptide binding]; other site 1007105002307 putative CheW interface [polypeptide binding]; other site 1007105002308 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1007105002309 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1007105002310 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 1007105002311 S-adenosylmethionine binding site [chemical binding]; other site 1007105002312 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1007105002313 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 1007105002314 active site 1007105002315 phosphorylation site [posttranslational modification] 1007105002316 intermolecular recognition site; other site 1007105002317 dimerization interface [polypeptide binding]; other site 1007105002318 CheB methylesterase; Region: CheB_methylest; pfam01339 1007105002319 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1007105002320 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 1007105002321 active site 1007105002322 phosphorylation site [posttranslational modification] 1007105002323 intermolecular recognition site; other site 1007105002324 dimerization interface [polypeptide binding]; other site 1007105002325 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1007105002326 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1007105002327 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1007105002328 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1007105002329 FHIPEP family; Region: FHIPEP; pfam00771 1007105002330 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 1007105002331 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 1007105002332 FlgN protein; Region: FlgN; pfam05130 1007105002333 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1007105002334 SAF-like; Region: SAF_2; pfam13144 1007105002335 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1007105002336 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1007105002337 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1007105002338 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1007105002339 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1007105002340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1007105002341 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1007105002342 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 1007105002343 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1007105002344 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1007105002345 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1007105002346 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3390 1007105002347 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1007105002348 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1007105002349 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1007105002350 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1007105002351 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1007105002352 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1007105002353 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1007105002354 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1007105002355 Flagellar L-ring protein; Region: FlgH; cl17277 1007105002356 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1007105002357 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1007105002358 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1007105002359 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 1007105002360 Rod binding protein; Region: Rod-binding; cl01626 1007105002361 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1007105002362 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1007105002363 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1007105002364 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1007105002365 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1007105002366 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 1007105002367 dimerization interface [polypeptide binding]; other site 1007105002368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1007105002369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1007105002370 dimer interface [polypeptide binding]; other site 1007105002371 putative CheW interface [polypeptide binding]; other site 1007105002372 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1007105002373 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1007105002374 dimer interface [polypeptide binding]; other site 1007105002375 ligand binding site [chemical binding]; other site 1007105002376 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 1007105002377 dimerization interface [polypeptide binding]; other site 1007105002378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1007105002379 dimer interface [polypeptide binding]; other site 1007105002380 putative CheW interface [polypeptide binding]; other site 1007105002381 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1007105002382 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1007105002383 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1007105002384 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1007105002385 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1007105002386 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1007105002387 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1007105002388 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1007105002389 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1007105002390 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1007105002391 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1007105002392 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1007105002393 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1007105002394 Walker A motif/ATP binding site; other site 1007105002395 Walker B motif; other site 1007105002396 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1007105002397 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1007105002398 Flagellar assembly protein FliH; Region: FliH; pfam02108 1007105002399 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1007105002400 MgtE intracellular N domain; Region: MgtE_N; cl15244 1007105002401 FliG C-terminal domain; Region: FliG_C; pfam01706 1007105002402 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1007105002403 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1007105002404 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1007105002405 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1007105002406 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1007105002407 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1007105002408 Flagellar protein FliT; Region: FliT; pfam05400 1007105002409 Flagellar protein FliS; Region: FliS; cl00654 1007105002410 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1007105002411 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1007105002412 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1007105002413 FlaG protein; Region: FlaG; pfam03646 1007105002414 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1007105002415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105002416 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1007105002417 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 1007105002418 DNA binding residues [nucleotide binding] 1007105002419 flagellin; Validated; Region: PRK06819 1007105002420 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1007105002421 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1007105002422 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1007105002423 substrate binding site [chemical binding]; other site 1007105002424 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1007105002425 catalytic triad [active] 1007105002426 putative active site [active] 1007105002427 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1007105002428 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1007105002429 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105002430 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1007105002431 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1007105002432 dimer interface [polypeptide binding]; other site 1007105002433 putative anticodon binding site; other site 1007105002434 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1007105002435 motif 1; other site 1007105002436 active site 1007105002437 motif 2; other site 1007105002438 motif 3; other site 1007105002439 short chain dehydrogenase; Provisional; Region: PRK07023 1007105002440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105002441 NAD(P) binding site [chemical binding]; other site 1007105002442 active site 1007105002443 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1007105002444 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1007105002445 RF-1 domain; Region: RF-1; pfam00472 1007105002446 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1007105002447 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 1007105002448 gating phenylalanine in ion channel; other site 1007105002449 DctM-like transporters; Region: DctM; pfam06808 1007105002450 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105002451 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105002452 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105002453 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105002454 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1007105002455 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 1007105002456 dimer interface [polypeptide binding]; other site 1007105002457 conserved gate region; other site 1007105002458 putative PBP binding loops; other site 1007105002459 ABC-ATPase subunit interface; other site 1007105002460 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 1007105002461 dimer interface [polypeptide binding]; other site 1007105002462 conserved gate region; other site 1007105002463 putative PBP binding loops; other site 1007105002464 ABC-ATPase subunit interface; other site 1007105002465 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1007105002466 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1007105002467 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1007105002468 Walker A/P-loop; other site 1007105002469 ATP binding site [chemical binding]; other site 1007105002470 Q-loop/lid; other site 1007105002471 ABC transporter signature motif; other site 1007105002472 Walker B; other site 1007105002473 D-loop; other site 1007105002474 H-loop/switch region; other site 1007105002475 TOBE domain; Region: TOBE_2; pfam08402 1007105002476 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1007105002477 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1007105002478 active site 1007105002479 metal binding site [ion binding]; metal-binding site 1007105002480 DNA binding site [nucleotide binding] 1007105002481 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1007105002482 AAA domain; Region: AAA_27; pfam13514 1007105002483 Hemerythrin-like domain; Region: Hr-like; cd12108 1007105002484 Fe binding site [ion binding]; other site 1007105002485 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1007105002486 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1007105002487 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1007105002488 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1007105002489 Walker A/P-loop; other site 1007105002490 ATP binding site [chemical binding]; other site 1007105002491 Q-loop/lid; other site 1007105002492 ABC transporter signature motif; other site 1007105002493 Walker B; other site 1007105002494 D-loop; other site 1007105002495 H-loop/switch region; other site 1007105002496 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1007105002497 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 1007105002498 substrate binding pocket [chemical binding]; other site 1007105002499 membrane-bound complex binding site; other site 1007105002500 hinge residues; other site 1007105002501 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105002502 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 1007105002503 dimer interface [polypeptide binding]; other site 1007105002504 conserved gate region; other site 1007105002505 putative PBP binding loops; other site 1007105002506 ABC-ATPase subunit interface; other site 1007105002507 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 1007105002508 membrane-bound complex binding site; other site 1007105002509 hinge residues; other site 1007105002510 serine O-acetyltransferase; Region: cysE; TIGR01172 1007105002511 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 1007105002512 trimer interface [polypeptide binding]; other site 1007105002513 active site 1007105002514 substrate binding site [chemical binding]; other site 1007105002515 CoA binding site [chemical binding]; other site 1007105002516 Predicted transcriptional regulators [Transcription]; Region: COG1733 1007105002517 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1007105002518 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1007105002519 SnoaL-like domain; Region: SnoaL_3; pfam13474 1007105002520 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 1007105002521 putative dimer interface [polypeptide binding]; other site 1007105002522 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105002523 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1007105002524 Sodium Bile acid symporter family; Region: SBF; pfam01758 1007105002525 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105002526 EamA-like transporter family; Region: EamA; pfam00892 1007105002527 EamA-like transporter family; Region: EamA; cl17759 1007105002528 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1007105002529 DHH family; Region: DHH; pfam01368 1007105002530 DHHA1 domain; Region: DHHA1; pfam02272 1007105002531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1007105002532 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1007105002533 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1007105002534 FtsX-like permease family; Region: FtsX; pfam02687 1007105002535 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1007105002536 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1007105002537 Walker A/P-loop; other site 1007105002538 ATP binding site [chemical binding]; other site 1007105002539 Q-loop/lid; other site 1007105002540 ABC transporter signature motif; other site 1007105002541 Walker B; other site 1007105002542 D-loop; other site 1007105002543 H-loop/switch region; other site 1007105002544 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1007105002545 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1007105002546 active site 1007105002547 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105002548 hypothetical protein; Provisional; Region: PRK00872 1007105002549 hypothetical protein; Provisional; Region: PRK07538 1007105002550 hypothetical protein; Provisional; Region: PRK07236 1007105002551 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1007105002552 MarR family; Region: MarR; pfam01047 1007105002553 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1007105002554 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1007105002555 Competence protein; Region: Competence; pfam03772 1007105002556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1007105002557 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1007105002558 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1007105002559 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 1007105002560 tetramer interface [polypeptide binding]; other site 1007105002561 TPP-binding site [chemical binding]; other site 1007105002562 heterodimer interface [polypeptide binding]; other site 1007105002563 phosphorylation loop region [posttranslational modification] 1007105002564 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1007105002565 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 1007105002566 alpha subunit interface [polypeptide binding]; other site 1007105002567 TPP binding site [chemical binding]; other site 1007105002568 heterodimer interface [polypeptide binding]; other site 1007105002569 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105002570 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1007105002571 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 1007105002572 E3 interaction surface; other site 1007105002573 lipoyl attachment site [posttranslational modification]; other site 1007105002574 e3 binding domain; Region: E3_binding; pfam02817 1007105002575 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105002576 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1007105002577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105002578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105002579 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1007105002580 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1007105002581 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1007105002582 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1007105002583 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1007105002584 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1007105002585 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1007105002586 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1007105002587 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 1007105002588 dimerization interface [polypeptide binding]; other site 1007105002589 ATP binding site [chemical binding]; other site 1007105002590 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 1007105002591 dimerization interface [polypeptide binding]; other site 1007105002592 ATP binding site [chemical binding]; other site 1007105002593 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1007105002594 putative active site [active] 1007105002595 catalytic triad [active] 1007105002596 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1007105002597 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 1007105002598 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 1007105002599 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 1007105002600 active site 1007105002601 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1007105002602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105002603 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 1007105002604 putative substrate translocation pore; other site 1007105002605 GMP synthase; Reviewed; Region: guaA; PRK00074 1007105002606 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1007105002607 AMP/PPi binding site [chemical binding]; other site 1007105002608 candidate oxyanion hole; other site 1007105002609 catalytic triad [active] 1007105002610 potential glutamine specificity residues [chemical binding]; other site 1007105002611 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 1007105002612 ATP Binding subdomain [chemical binding]; other site 1007105002613 Ligand Binding sites [chemical binding]; other site 1007105002614 Dimerization subdomain; other site 1007105002615 integrase; Provisional; Region: PRK09692 1007105002616 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 1007105002617 active site 1007105002618 Int/Topo IB signature motif; other site 1007105002619 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1007105002620 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1007105002621 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1007105002622 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105002623 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1007105002624 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1007105002625 trimer interface [polypeptide binding]; other site 1007105002626 eyelet of channel; other site 1007105002627 OsmC-like protein; Region: OsmC; cl00767 1007105002628 benzoate transport; Region: 2A0115; TIGR00895 1007105002629 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 1007105002630 putative substrate translocation pore; other site 1007105002631 Predicted ATPase [General function prediction only]; Region: COG3903 1007105002632 SnoaL-like domain; Region: SnoaL_2; pfam12680 1007105002633 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105002634 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 1007105002635 DNA binding site [nucleotide binding] 1007105002636 Predicted ATPase [General function prediction only]; Region: COG3903 1007105002637 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1007105002638 Isochorismatase family; Region: Isochorismatase; pfam00857 1007105002639 catalytic triad [active] 1007105002640 dimer interface [polypeptide binding]; other site 1007105002641 conserved cis-peptide bond; other site 1007105002642 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1007105002643 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1007105002644 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1007105002645 active site 1007105002646 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1007105002647 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105002648 Transposase; Region: HTH_Tnp_1; pfam01527 1007105002649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002650 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105002651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002652 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105002653 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105002654 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105002655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002656 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105002657 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105002658 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105002659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002660 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105002661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1007105002662 Transposase; Region: HTH_Tnp_1; pfam01527 1007105002663 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1007105002664 Isochorismatase family; Region: Isochorismatase; pfam00857 1007105002665 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1007105002666 catalytic triad [active] 1007105002667 dimer interface [polypeptide binding]; other site 1007105002668 conserved cis-peptide bond; other site 1007105002669 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1007105002670 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1007105002671 Predicted membrane protein [Function unknown]; Region: COG2259 1007105002672 Transmembrane secretion effector; Region: MFS_3; pfam05977 1007105002673 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 1007105002674 putative substrate translocation pore; other site 1007105002675 Pirin-related protein [General function prediction only]; Region: COG1741 1007105002676 Pirin; Region: Pirin; pfam02678 1007105002677 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1007105002678 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1007105002679 classical (c) SDRs; Region: SDR_c; cd05233 1007105002680 NAD(P) binding site [chemical binding]; other site 1007105002681 active site 1007105002682 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_like_4; cd06152 1007105002683 homotrimer interaction site [polypeptide binding]; other site 1007105002684 putative active site [active] 1007105002685 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1007105002686 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105002687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105002688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105002689 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1007105002690 putative effector binding pocket; other site 1007105002691 putative dimerization interface [polypeptide binding]; other site 1007105002692 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1007105002693 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1007105002694 homotrimer interaction site [polypeptide binding]; other site 1007105002695 putative active site [active] 1007105002696 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1007105002697 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1007105002698 NAD(P) binding site [chemical binding]; other site 1007105002699 substrate binding site [chemical binding]; other site 1007105002700 dimer interface [polypeptide binding]; other site 1007105002701 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1007105002702 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 1007105002703 active site 1007105002704 FMN binding site [chemical binding]; other site 1007105002705 substrate binding site [chemical binding]; other site 1007105002706 catalytic residue [active] 1007105002707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1007105002708 Transposase; Region: HTH_Tnp_1; pfam01527 1007105002709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002710 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105002711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105002712 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105002713 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105002714 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105002715 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 1007105002716 phosphate binding site [ion binding]; other site 1007105002717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105002718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105002719 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 1007105002720 dimerization interface [polypeptide binding]; other site 1007105002721 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1007105002722 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1007105002723 N-terminal domain interface [polypeptide binding]; other site 1007105002724 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105002725 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1007105002726 active site 1007105002727 metal binding site [ion binding]; metal-binding site 1007105002728 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105002729 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105002730 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 1007105002731 NAD(P) binding site [chemical binding]; other site 1007105002732 catalytic residues [active] 1007105002733 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1007105002734 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1007105002735 Abi-like protein; Region: Abi_2; cl01988 1007105002736 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1007105002737 ThiC-associated domain; Region: ThiC-associated; pfam13667 1007105002738 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1007105002739 GAF domain; Region: GAF; pfam01590 1007105002740 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1007105002741 LytTr DNA-binding domain; Region: LytTR; smart00850 1007105002742 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105002743 Beta-lactamase; Region: Beta-lactamase; cl17358 1007105002744 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105002745 Beta-lactamase; Region: Beta-lactamase; pfam00144 1007105002746 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1007105002747 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1007105002748 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1007105002749 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1007105002750 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1007105002751 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1007105002752 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1007105002753 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1007105002754 Ligand binding site; other site 1007105002755 metal-binding site 1007105002756 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1007105002757 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1007105002758 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1007105002759 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1007105002760 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1007105002761 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 1007105002762 catalytic loop [active] 1007105002763 iron binding site [ion binding]; other site 1007105002764 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1007105002765 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1007105002766 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 1007105002767 motif II; other site 1007105002768 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1007105002769 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1007105002770 Predicted membrane protein [Function unknown]; Region: COG2323 1007105002771 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1007105002772 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1007105002773 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 1007105002774 D-pathway; other site 1007105002775 Low-spin heme binding site [chemical binding]; other site 1007105002776 Putative water exit pathway; other site 1007105002777 Binuclear center (active site) [active] 1007105002778 K-pathway; other site 1007105002779 Putative proton exit pathway; other site 1007105002780 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 1007105002781 Subunit I/III interface [polypeptide binding]; other site 1007105002782 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1007105002783 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1007105002784 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105002785 Cytochrome c; Region: Cytochrom_C; cl11414 1007105002786 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105002787 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1007105002788 Cytochrome c; Region: Cytochrom_C; cl11414 1007105002789 short chain dehydrogenase; Provisional; Region: PRK06701 1007105002790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105002791 NAD(P) binding site [chemical binding]; other site 1007105002792 active site 1007105002793 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1007105002794 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105002795 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105002796 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105002797 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1007105002798 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105002799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105002800 DNA-binding site [nucleotide binding]; DNA binding site 1007105002801 FCD domain; Region: FCD; pfam07729 1007105002802 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1007105002803 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1007105002804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105002805 NAD(P) binding site [chemical binding]; other site 1007105002806 active site 1007105002807 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 1007105002808 Isochorismatase family; Region: Isochorismatase; pfam00857 1007105002809 catalytic triad [active] 1007105002810 conserved cis-peptide bond; other site 1007105002811 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1007105002812 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1007105002813 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1007105002814 acyl-activating enzyme (AAE) consensus motif; other site 1007105002815 AMP binding site [chemical binding]; other site 1007105002816 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105002817 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1007105002818 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1007105002819 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1007105002820 acyl-activating enzyme (AAE) consensus motif; other site 1007105002821 active site 1007105002822 AMP binding site [chemical binding]; other site 1007105002823 substrate binding site [chemical binding]; other site 1007105002824 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1007105002825 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1007105002826 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1007105002827 intersubunit interface [polypeptide binding]; other site 1007105002828 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1007105002829 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1007105002830 Walker A/P-loop; other site 1007105002831 ATP binding site [chemical binding]; other site 1007105002832 Q-loop/lid; other site 1007105002833 ABC transporter signature motif; other site 1007105002834 Walker B; other site 1007105002835 D-loop; other site 1007105002836 H-loop/switch region; other site 1007105002837 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1007105002838 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1007105002839 ABC-ATPase subunit interface; other site 1007105002840 dimer interface [polypeptide binding]; other site 1007105002841 putative PBP binding regions; other site 1007105002842 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1007105002843 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 1007105002844 substrate binding pocket [chemical binding]; other site 1007105002845 membrane-bound complex binding site; other site 1007105002846 hinge residues; other site 1007105002847 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1007105002848 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1007105002849 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105002850 EamA-like transporter family; Region: EamA; pfam00892 1007105002851 EamA-like transporter family; Region: EamA; pfam00892 1007105002852 LrgA family; Region: LrgA; pfam03788 1007105002853 LrgB-like family; Region: LrgB; pfam04172 1007105002854 acyl-CoA synthetase; Validated; Region: PRK08162 1007105002855 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1007105002856 acyl-activating enzyme (AAE) consensus motif; other site 1007105002857 putative active site [active] 1007105002858 AMP binding site [chemical binding]; other site 1007105002859 putative CoA binding site [chemical binding]; other site 1007105002860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1007105002861 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1007105002862 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1007105002863 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1007105002864 inhibitor site; inhibition site 1007105002865 active site 1007105002866 dimer interface [polypeptide binding]; other site 1007105002867 catalytic residue [active] 1007105002868 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1007105002869 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1007105002870 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1007105002871 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1007105002872 Walker A/P-loop; other site 1007105002873 ATP binding site [chemical binding]; other site 1007105002874 Q-loop/lid; other site 1007105002875 ABC transporter signature motif; other site 1007105002876 Walker B; other site 1007105002877 D-loop; other site 1007105002878 H-loop/switch region; other site 1007105002879 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1007105002880 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 1007105002881 putative substrate binding site [chemical binding]; other site 1007105002882 putative ATP binding site [chemical binding]; other site 1007105002883 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1007105002884 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 1007105002885 nucleoside/Zn binding site; other site 1007105002886 dimer interface [polypeptide binding]; other site 1007105002887 catalytic motif [active] 1007105002888 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1007105002889 dimer interface [polypeptide binding]; other site 1007105002890 catalytic triad [active] 1007105002891 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1007105002892 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002893 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002894 ABC transporter; Region: ABC_tran_2; pfam12848 1007105002895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105002896 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1007105002897 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1007105002898 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1007105002899 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 1007105002900 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105002901 catalytic residues [active] 1007105002902 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1007105002903 UGMP family protein; Validated; Region: PRK09604 1007105002904 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1007105002905 Spb1 C-terminal domain; Region: Spb1_C; pfam07780 1007105002906 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1007105002907 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1007105002908 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1007105002909 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 1007105002910 S-adenosylmethionine binding site [chemical binding]; other site 1007105002911 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1007105002912 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1007105002913 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105002914 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1007105002915 active site 1007105002916 catalytic site [active] 1007105002917 substrate binding site [chemical binding]; other site 1007105002918 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1007105002919 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1007105002920 dimer interface [polypeptide binding]; other site 1007105002921 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1007105002922 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1007105002923 cyclase homology domain; Region: CHD; cd07302 1007105002924 nucleotidyl binding site; other site 1007105002925 metal binding site [ion binding]; metal-binding site 1007105002926 dimer interface [polypeptide binding]; other site 1007105002927 AAA ATPase domain; Region: AAA_16; pfam13191 1007105002928 argininosuccinate lyase; Provisional; Region: PRK00855 1007105002929 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1007105002930 active sites [active] 1007105002931 tetramer interface [polypeptide binding]; other site 1007105002932 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1007105002933 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1007105002934 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1007105002935 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1007105002936 YaeQ protein; Region: YaeQ; pfam07152 1007105002937 Chorismate lyase; Region: Chor_lyase; cl01230 1007105002938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1007105002939 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 1007105002940 RNA binding surface [nucleotide binding]; other site 1007105002941 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1007105002942 active site 1007105002943 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1007105002944 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1007105002945 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1007105002946 putative active site [active] 1007105002947 catalytic site [active] 1007105002948 putative metal binding site [ion binding]; other site 1007105002949 SurA N-terminal domain; Region: SurA_N_3; cl07813 1007105002950 periplasmic folding chaperone; Provisional; Region: PRK10788 1007105002951 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1007105002952 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 1007105002953 active site 1007105002954 catalytic triad [active] 1007105002955 oxyanion hole [active] 1007105002956 switch loop; other site 1007105002957 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1007105002958 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1007105002959 Walker A/P-loop; other site 1007105002960 ATP binding site [chemical binding]; other site 1007105002961 Q-loop/lid; other site 1007105002962 ABC transporter signature motif; other site 1007105002963 Walker B; other site 1007105002964 D-loop; other site 1007105002965 H-loop/switch region; other site 1007105002966 DctM-like transporters; Region: DctM; pfam06808 1007105002967 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1007105002968 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105002969 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105002970 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1007105002971 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105002972 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1007105002973 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1007105002974 Zn2+ binding site [ion binding]; other site 1007105002975 Mg2+ binding site [ion binding]; other site 1007105002976 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1007105002977 synthetase active site [active] 1007105002978 NTP binding site [chemical binding]; other site 1007105002979 metal binding site [ion binding]; metal-binding site 1007105002980 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 1007105002981 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1007105002982 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1007105002983 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1007105002984 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 1007105002985 catalytic site [active] 1007105002986 G-X2-G-X-G-K; other site 1007105002987 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 1007105002988 S-adenosylmethionine binding site [chemical binding]; other site 1007105002989 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 1007105002990 putative catalytic site [active] 1007105002991 putative phosphate binding site [ion binding]; other site 1007105002992 active site 1007105002993 metal binding site A [ion binding]; metal-binding site 1007105002994 DNA binding site [nucleotide binding] 1007105002995 putative AP binding site [nucleotide binding]; other site 1007105002996 putative metal binding site B [ion binding]; other site 1007105002997 beta-ketothiolase; Provisional; Region: PRK09051 1007105002998 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 1007105002999 dimer interface [polypeptide binding]; other site 1007105003000 active site 1007105003001 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 1007105003002 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1007105003003 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1007105003004 zinc binding site [ion binding]; other site 1007105003005 putative ligand binding site [chemical binding]; other site 1007105003006 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105003007 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1007105003008 TM-ABC transporter signature motif; other site 1007105003009 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1007105003010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105003011 Walker A/P-loop; other site 1007105003012 ATP binding site [chemical binding]; other site 1007105003013 Q-loop/lid; other site 1007105003014 ABC transporter signature motif; other site 1007105003015 Walker B; other site 1007105003016 D-loop; other site 1007105003017 H-loop/switch region; other site 1007105003018 BON domain; Region: BON; pfam04972 1007105003019 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1007105003020 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105003021 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105003022 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1007105003023 Protein export membrane protein; Region: SecD_SecF; cl14618 1007105003024 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1007105003025 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 1007105003026 active site 1007105003027 hydrophilic channel; other site 1007105003028 dimerization interface [polypeptide binding]; other site 1007105003029 catalytic residues [active] 1007105003030 active site lid [active] 1007105003031 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1007105003032 putative FMN binding site [chemical binding]; other site 1007105003033 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1007105003034 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105003035 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105003036 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105003037 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1007105003038 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 1007105003039 Cu(I) binding site [ion binding]; other site 1007105003040 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1007105003041 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1007105003042 active site 1007105003043 Zn binding site [ion binding]; other site 1007105003044 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1007105003045 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1007105003046 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1007105003047 homodimer interface [polypeptide binding]; other site 1007105003048 NADP binding site [chemical binding]; other site 1007105003049 substrate binding site [chemical binding]; other site 1007105003050 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1007105003051 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 1007105003052 active site 1007105003053 phosphorylation site [posttranslational modification] 1007105003054 intermolecular recognition site; other site 1007105003055 dimerization interface [polypeptide binding]; other site 1007105003056 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 1007105003057 DNA binding residues [nucleotide binding] 1007105003058 dimerization interface [polypeptide binding]; other site 1007105003059 PAS domain S-box; Region: sensory_box; TIGR00229 1007105003060 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 1007105003061 putative active site [active] 1007105003062 heme pocket [chemical binding]; other site 1007105003063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1007105003064 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 1007105003065 dimer interface [polypeptide binding]; other site 1007105003066 phosphorylation site [posttranslational modification] 1007105003067 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 1007105003068 ATP binding site [chemical binding]; other site 1007105003069 Mg2+ binding site [ion binding]; other site 1007105003070 G-X-G motif; other site 1007105003071 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1007105003072 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1007105003073 dimer interface [polypeptide binding]; other site 1007105003074 TPP-binding site [chemical binding]; other site 1007105003075 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1007105003076 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 1007105003077 E3 interaction surface; other site 1007105003078 lipoyl attachment site [posttranslational modification]; other site 1007105003079 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 1007105003080 E3 interaction surface; other site 1007105003081 lipoyl attachment site [posttranslational modification]; other site 1007105003082 e3 binding domain; Region: E3_binding; pfam02817 1007105003083 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105003084 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 1007105003085 E3 interaction surface; other site 1007105003086 lipoyl attachment site [posttranslational modification]; other site 1007105003087 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1007105003088 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1007105003089 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105003090 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105003091 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1007105003092 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105003093 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1007105003094 Sporulation related domain; Region: SPOR; pfam05036 1007105003095 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1007105003096 Colicin V production protein; Region: Colicin_V; pfam02674 1007105003097 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1007105003098 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 1007105003099 active site 1007105003100 tetramer interface [polypeptide binding]; other site 1007105003101 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105003102 active site 1007105003103 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1007105003104 PII uridylyl-transferase; Provisional; Region: PRK03059 1007105003105 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1007105003106 metal binding triad; other site 1007105003107 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1007105003108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1007105003109 Zn2+ binding site [ion binding]; other site 1007105003110 Mg2+ binding site [ion binding]; other site 1007105003111 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1007105003112 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 1007105003113 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 1007105003114 active site 1007105003115 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 1007105003116 rRNA interaction site [nucleotide binding]; other site 1007105003117 S8 interaction site; other site 1007105003118 putative laminin-1 binding site; other site 1007105003119 elongation factor Ts; Provisional; Region: tsf; PRK09377 1007105003120 UBA/TS-N domain; Region: UBA; pfam00627 1007105003121 Elongation factor TS; Region: EF_TS; pfam00889 1007105003122 Elongation factor TS; Region: EF_TS; pfam00889 1007105003123 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 1007105003124 putative nucleotide binding site [chemical binding]; other site 1007105003125 uridine monophosphate binding site [chemical binding]; other site 1007105003126 homohexameric interface [polypeptide binding]; other site 1007105003127 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1007105003128 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 1007105003129 hinge region; other site 1007105003130 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 1007105003131 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1007105003132 catalytic residue [active] 1007105003133 putative FPP diphosphate binding site; other site 1007105003134 putative FPP binding hydrophobic cleft; other site 1007105003135 dimer interface [polypeptide binding]; other site 1007105003136 putative IPP diphosphate binding site; other site 1007105003137 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1007105003138 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1007105003139 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1007105003140 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1007105003141 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1007105003142 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1007105003143 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1007105003144 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 1007105003145 active site 1007105003146 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 1007105003147 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 1007105003148 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 1007105003149 putative substrate binding region [chemical binding]; other site 1007105003150 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1007105003151 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1007105003152 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1007105003153 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1007105003154 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1007105003155 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1007105003156 Surface antigen; Region: Bac_surface_Ag; pfam01103 1007105003157 periplasmic chaperone; Provisional; Region: PRK10780 1007105003158 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1007105003159 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1007105003160 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1007105003161 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 1007105003162 trimer interface [polypeptide binding]; other site 1007105003163 active site 1007105003164 UDP-GlcNAc binding site [chemical binding]; other site 1007105003165 lipid binding site [chemical binding]; lipid-binding site 1007105003166 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 1007105003167 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1007105003168 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1007105003169 active site 1007105003170 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1007105003171 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1007105003172 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1007105003173 RNA/DNA hybrid binding site [nucleotide binding]; other site 1007105003174 active site 1007105003175 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1007105003176 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1007105003177 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1007105003178 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1007105003179 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1007105003180 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1007105003181 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1007105003182 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105003183 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105003184 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1007105003185 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1007105003186 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1007105003187 Protein export membrane protein; Region: SecD_SecF; cl14618 1007105003188 Protein export membrane protein; Region: SecD_SecF; cl14618 1007105003189 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1007105003190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1007105003191 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105003192 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1007105003193 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 1007105003194 DNA binding site [nucleotide binding] 1007105003195 active site 1007105003196 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 1007105003197 SmpB-tmRNA interface; other site 1007105003198 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1007105003199 putative coenzyme Q binding site [chemical binding]; other site 1007105003200 hypothetical protein; Validated; Region: PRK01777 1007105003201 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105003202 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105003203 active site 1007105003204 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1007105003205 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 1007105003206 substrate binding site [chemical binding]; other site 1007105003207 oxyanion hole (OAH) forming residues; other site 1007105003208 trimer interface [polypeptide binding]; other site 1007105003209 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1007105003210 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105003211 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1007105003212 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1007105003213 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1007105003214 YceG-like family; Region: YceG; pfam02618 1007105003215 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1007105003216 dimerization interface [polypeptide binding]; other site 1007105003217 thymidylate kinase; Validated; Region: tmk; PRK00698 1007105003218 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 1007105003219 TMP-binding site; other site 1007105003220 ATP-binding site [chemical binding]; other site 1007105003221 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1007105003222 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1007105003223 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1007105003224 active site 1007105003225 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1007105003226 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 1007105003227 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1007105003228 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1007105003229 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1007105003230 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 1007105003231 C-terminal domain interface [polypeptide binding]; other site 1007105003232 GSH binding site (G-site) [chemical binding]; other site 1007105003233 dimer interface [polypeptide binding]; other site 1007105003234 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1007105003235 N-terminal domain interface [polypeptide binding]; other site 1007105003236 putative dimer interface [polypeptide binding]; other site 1007105003237 active site 1007105003238 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 1007105003239 catalytic residues [active] 1007105003240 dimer interface [polypeptide binding]; other site 1007105003241 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1007105003242 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 1007105003243 catalytic triad [active] 1007105003244 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1007105003245 EamA-like transporter family; Region: EamA; cl17759 1007105003246 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1007105003247 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1007105003248 Walker A/P-loop; other site 1007105003249 ATP binding site [chemical binding]; other site 1007105003250 Q-loop/lid; other site 1007105003251 ABC transporter signature motif; other site 1007105003252 Walker B; other site 1007105003253 D-loop; other site 1007105003254 H-loop/switch region; other site 1007105003255 TOBE-like domain; Region: TOBE_3; pfam12857 1007105003256 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1007105003257 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 1007105003258 dimer interface [polypeptide binding]; other site 1007105003259 conserved gate region; other site 1007105003260 putative PBP binding loops; other site 1007105003261 ABC-ATPase subunit interface; other site 1007105003262 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1007105003263 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 1007105003264 dimer interface [polypeptide binding]; other site 1007105003265 conserved gate region; other site 1007105003266 putative PBP binding loops; other site 1007105003267 ABC-ATPase subunit interface; other site 1007105003268 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1007105003269 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 1007105003270 substrate binding pocket [chemical binding]; other site 1007105003271 membrane-bound complex binding site; other site 1007105003272 hinge residues; other site 1007105003273 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1007105003274 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1007105003275 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1007105003276 PRC-barrel domain; Region: PRC; pfam05239 1007105003277 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1007105003278 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1007105003279 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1007105003280 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1007105003281 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 1007105003282 metal-binding site [ion binding] 1007105003283 azurin; Region: azurin; TIGR02695 1007105003284 Pirin-related protein [General function prediction only]; Region: COG1741 1007105003285 Pirin; Region: Pirin; pfam02678 1007105003286 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1007105003287 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105003288 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 1007105003289 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1007105003290 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1007105003291 putative active site [active] 1007105003292 putative metal binding site [ion binding]; other site 1007105003293 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 1007105003294 ArsC family; Region: ArsC; pfam03960 1007105003295 catalytic residues [active] 1007105003296 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1007105003297 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1007105003298 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1007105003299 putative dimer interface [polypeptide binding]; other site 1007105003300 N-terminal domain interface [polypeptide binding]; other site 1007105003301 putative substrate binding pocket (H-site) [chemical binding]; other site 1007105003302 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1007105003303 YceI-like domain; Region: YceI; smart00867 1007105003304 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1007105003305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105003306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003307 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1007105003308 putative effector binding pocket; other site 1007105003309 dimerization interface [polypeptide binding]; other site 1007105003310 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1007105003311 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1007105003312 Chromate transporter; Region: Chromate_transp; pfam02417 1007105003313 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1007105003314 arsenical pump membrane protein; Provisional; Region: PRK15445 1007105003315 transmembrane helices; other site 1007105003316 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1007105003317 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1007105003318 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1007105003319 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1007105003320 active site 1007105003321 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 1007105003322 dimerization interface [polypeptide binding]; other site 1007105003323 putative DNA binding site [nucleotide binding]; other site 1007105003324 putative Zn2+ binding site [ion binding]; other site 1007105003325 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1007105003326 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105003327 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1007105003328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1007105003329 dimer interface [polypeptide binding]; other site 1007105003330 putative CheW interface [polypeptide binding]; other site 1007105003331 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1007105003332 putative homodimer-homodimer interface [polypeptide binding]; other site 1007105003333 putative allosteric switch controlling residues; other site 1007105003334 putative metal binding site [ion binding]; other site 1007105003335 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1007105003336 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1007105003337 sensor kinase CusS; Provisional; Region: PRK09835 1007105003338 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 1007105003339 dimerization interface [polypeptide binding]; other site 1007105003340 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 1007105003341 dimer interface [polypeptide binding]; other site 1007105003342 phosphorylation site [posttranslational modification] 1007105003343 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 1007105003344 ATP binding site [chemical binding]; other site 1007105003345 Mg2+ binding site [ion binding]; other site 1007105003346 G-X-G motif; other site 1007105003347 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1007105003348 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 1007105003349 active site 1007105003350 phosphorylation site [posttranslational modification] 1007105003351 intermolecular recognition site; other site 1007105003352 dimerization interface [polypeptide binding]; other site 1007105003353 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 1007105003354 DNA binding site [nucleotide binding] 1007105003355 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1007105003356 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1007105003357 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1007105003358 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1007105003359 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1007105003360 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1007105003361 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1007105003362 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1007105003363 Protein of unknown function, DUF; Region: DUF411; cl01142 1007105003364 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1007105003365 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 1007105003366 putative catalytic residue [active] 1007105003367 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105003368 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105003369 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105003370 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1007105003371 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 1007105003372 C-terminal domain interface [polypeptide binding]; other site 1007105003373 GSH binding site (G-site) [chemical binding]; other site 1007105003374 dimer interface [polypeptide binding]; other site 1007105003375 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1007105003376 N-terminal domain interface [polypeptide binding]; other site 1007105003377 putative dimer interface [polypeptide binding]; other site 1007105003378 active site 1007105003379 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1007105003380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003381 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1007105003382 putative dimerization interface [polypeptide binding]; other site 1007105003383 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105003384 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105003385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105003386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003387 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1007105003388 putative dimerization interface [polypeptide binding]; other site 1007105003389 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105003390 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 1007105003391 substrate binding site [chemical binding]; other site 1007105003392 oxyanion hole (OAH) forming residues; other site 1007105003393 trimer interface [polypeptide binding]; other site 1007105003394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105003395 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105003396 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105003397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105003398 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 1007105003399 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 1007105003400 Ligand Binding Site [chemical binding]; other site 1007105003401 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 1007105003402 Ligand Binding Site [chemical binding]; other site 1007105003403 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1007105003404 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1007105003405 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1007105003406 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 1007105003407 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1007105003408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105003409 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 1007105003410 DNA binding residues [nucleotide binding] 1007105003411 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1007105003412 hypothetical protein; Provisional; Region: PRK05409 1007105003413 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1007105003414 Predicted membrane protein [Function unknown]; Region: COG2259 1007105003415 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105003416 Beta-lactamase; Region: Beta-lactamase; pfam00144 1007105003417 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 1007105003418 active site clefts [active] 1007105003419 zinc binding site [ion binding]; other site 1007105003420 dimer interface [polypeptide binding]; other site 1007105003421 Helix-turn-helix domain; Region: HTH_18; pfam12833 1007105003422 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1007105003423 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1007105003424 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1007105003425 TrkA-N domain; Region: TrkA_N; pfam02254 1007105003426 TrkA-C domain; Region: TrkA_C; pfam02080 1007105003427 TrkA-N domain; Region: TrkA_N; pfam02254 1007105003428 TrkA-C domain; Region: TrkA_C; pfam02080 1007105003429 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1007105003430 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1007105003431 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1007105003432 active site residue [active] 1007105003433 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1007105003434 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1007105003435 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1007105003436 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1007105003437 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1007105003438 DNA binding residues [nucleotide binding] 1007105003439 dimer interface [polypeptide binding]; other site 1007105003440 copper binding site [ion binding]; other site 1007105003441 hypothetical protein; Provisional; Region: PRK06185 1007105003442 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1007105003443 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1007105003444 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1007105003445 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1007105003446 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1007105003447 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1007105003448 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1007105003449 type II secretion system protein I; Region: gspI; TIGR01707 1007105003450 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1007105003451 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1007105003452 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1007105003453 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1007105003454 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1007105003455 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 1007105003456 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1007105003457 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1007105003458 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1007105003459 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1007105003460 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1007105003461 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1007105003462 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1007105003463 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 1007105003464 Walker A motif; other site 1007105003465 ATP binding site [chemical binding]; other site 1007105003466 Walker B motif; other site 1007105003467 type II secretion system protein F; Region: GspF; TIGR02120 1007105003468 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105003469 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105003470 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1007105003471 Sulfatase; Region: Sulfatase; cl17466 1007105003472 Sulfatase; Region: Sulfatase; cl17466 1007105003473 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1007105003474 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1007105003475 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1007105003476 Sulfatase; Region: Sulfatase; cl17466 1007105003477 Sulfatase; Region: Sulfatase; cl17466 1007105003478 spermidine synthase; Provisional; Region: PRK00811 1007105003479 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 1007105003480 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105003481 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 1007105003482 active site 1007105003483 phosphorylation site [posttranslational modification] 1007105003484 intermolecular recognition site; other site 1007105003485 dimerization interface [polypeptide binding]; other site 1007105003486 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 1007105003487 DNA binding site [nucleotide binding] 1007105003488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105003489 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1007105003490 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 1007105003491 ATP binding site [chemical binding]; other site 1007105003492 G-X-G motif; other site 1007105003493 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1007105003494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1007105003495 Predicted flavoprotein [General function prediction only]; Region: COG0431 1007105003496 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105003497 Acylphosphatase; Region: Acylphosphatase; cl00551 1007105003498 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 1007105003499 Ligand Binding Site [chemical binding]; other site 1007105003500 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1007105003501 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1007105003502 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1007105003503 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105003504 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105003505 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1007105003506 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 1007105003507 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1007105003508 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1007105003509 dimer interface [polypeptide binding]; other site 1007105003510 active site residues [active] 1007105003511 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1007105003512 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1007105003513 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1007105003514 Class II fumarases; Region: Fumarase_classII; cd01362 1007105003515 active site 1007105003516 tetramer interface [polypeptide binding]; other site 1007105003517 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1007105003518 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1007105003519 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1007105003520 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1007105003521 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1007105003522 tetrameric interface [polypeptide binding]; other site 1007105003523 NAD binding site [chemical binding]; other site 1007105003524 catalytic residues [active] 1007105003525 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1007105003526 glycerate dehydrogenase; Provisional; Region: PRK06487 1007105003527 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1007105003528 putative ligand binding site [chemical binding]; other site 1007105003529 putative NAD binding site [chemical binding]; other site 1007105003530 catalytic site [active] 1007105003531 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1007105003532 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105003533 glutathionine S-transferase; Provisional; Region: PRK10542 1007105003534 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 1007105003535 C-terminal domain interface [polypeptide binding]; other site 1007105003536 GSH binding site (G-site) [chemical binding]; other site 1007105003537 dimer interface [polypeptide binding]; other site 1007105003538 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1007105003539 dimer interface [polypeptide binding]; other site 1007105003540 N-terminal domain interface [polypeptide binding]; other site 1007105003541 substrate binding pocket (H-site) [chemical binding]; other site 1007105003542 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105003543 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105003544 Walker A/P-loop; other site 1007105003545 ATP binding site [chemical binding]; other site 1007105003546 Q-loop/lid; other site 1007105003547 ABC transporter signature motif; other site 1007105003548 Walker B; other site 1007105003549 D-loop; other site 1007105003550 H-loop/switch region; other site 1007105003551 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1007105003552 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105003553 Walker A/P-loop; other site 1007105003554 ATP binding site [chemical binding]; other site 1007105003555 Q-loop/lid; other site 1007105003556 ABC transporter signature motif; other site 1007105003557 Walker B; other site 1007105003558 D-loop; other site 1007105003559 H-loop/switch region; other site 1007105003560 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1007105003561 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1007105003562 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105003563 TM-ABC transporter signature motif; other site 1007105003564 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105003565 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105003566 TM-ABC transporter signature motif; other site 1007105003567 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105003568 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1007105003569 dimerization interface [polypeptide binding]; other site 1007105003570 ligand binding site [chemical binding]; other site 1007105003571 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1007105003572 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1007105003573 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1007105003574 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1007105003575 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 1007105003576 dimer interface [polypeptide binding]; other site 1007105003577 conserved gate region; other site 1007105003578 putative PBP binding loops; other site 1007105003579 ABC-ATPase subunit interface; other site 1007105003580 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1007105003581 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 1007105003582 dimer interface [polypeptide binding]; other site 1007105003583 conserved gate region; other site 1007105003584 putative PBP binding loops; other site 1007105003585 ABC-ATPase subunit interface; other site 1007105003586 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1007105003587 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1007105003588 Walker A/P-loop; other site 1007105003589 ATP binding site [chemical binding]; other site 1007105003590 Q-loop/lid; other site 1007105003591 ABC transporter signature motif; other site 1007105003592 Walker B; other site 1007105003593 D-loop; other site 1007105003594 H-loop/switch region; other site 1007105003595 TOBE domain; Region: TOBE_2; pfam08402 1007105003596 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105003597 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1007105003598 dimerization interface [polypeptide binding]; other site 1007105003599 ligand binding site [chemical binding]; other site 1007105003600 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1007105003601 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1007105003602 dimerization interface [polypeptide binding]; other site 1007105003603 DPS ferroxidase diiron center [ion binding]; other site 1007105003604 ion pore; other site 1007105003605 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1007105003606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003607 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1007105003608 dimerization interface [polypeptide binding]; other site 1007105003609 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1007105003610 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 1007105003611 generic binding surface II; other site 1007105003612 ssDNA binding site; other site 1007105003613 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 1007105003614 ATP binding site [chemical binding]; other site 1007105003615 putative Mg++ binding site [ion binding]; other site 1007105003616 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 1007105003617 nucleotide binding region [chemical binding]; other site 1007105003618 ATP-binding site [chemical binding]; other site 1007105003619 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1007105003620 homotrimer interaction site [polypeptide binding]; other site 1007105003621 putative active site [active] 1007105003622 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1007105003623 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1007105003624 FAD binding pocket [chemical binding]; other site 1007105003625 FAD binding motif [chemical binding]; other site 1007105003626 phosphate binding motif [ion binding]; other site 1007105003627 beta-alpha-beta structure motif; other site 1007105003628 NAD binding pocket [chemical binding]; other site 1007105003629 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1007105003630 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1007105003631 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1007105003632 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 1007105003633 dimer interface [polypeptide binding]; other site 1007105003634 conserved gate region; other site 1007105003635 putative PBP binding loops; other site 1007105003636 ABC-ATPase subunit interface; other site 1007105003637 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1007105003638 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1007105003639 Walker A/P-loop; other site 1007105003640 ATP binding site [chemical binding]; other site 1007105003641 Q-loop/lid; other site 1007105003642 ABC transporter signature motif; other site 1007105003643 Walker B; other site 1007105003644 D-loop; other site 1007105003645 H-loop/switch region; other site 1007105003646 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1007105003647 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 1007105003648 active site 1007105003649 phosphorylation site [posttranslational modification] 1007105003650 intermolecular recognition site; other site 1007105003651 dimerization interface [polypeptide binding]; other site 1007105003652 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 1007105003653 Walker A motif; other site 1007105003654 ATP binding site [chemical binding]; other site 1007105003655 Walker B motif; other site 1007105003656 arginine finger; other site 1007105003657 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1007105003658 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1007105003659 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 1007105003660 putative active site [active] 1007105003661 heme pocket [chemical binding]; other site 1007105003662 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 1007105003663 dimer interface [polypeptide binding]; other site 1007105003664 phosphorylation site [posttranslational modification] 1007105003665 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 1007105003666 ATP binding site [chemical binding]; other site 1007105003667 Mg2+ binding site [ion binding]; other site 1007105003668 G-X-G motif; other site 1007105003669 glutamine synthetase; Provisional; Region: glnA; PRK09469 1007105003670 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1007105003671 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1007105003672 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1007105003673 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 1007105003674 FeS/SAM binding site; other site 1007105003675 HemN C-terminal domain; Region: HemN_C; pfam06969 1007105003676 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 1007105003677 active site 1007105003678 dimerization interface [polypeptide binding]; other site 1007105003679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105003680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003681 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1007105003682 putative dimerization interface [polypeptide binding]; other site 1007105003683 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105003684 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105003685 active site 1007105003686 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1007105003687 ribonuclease PH; Reviewed; Region: rph; PRK00173 1007105003688 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1007105003689 hexamer interface [polypeptide binding]; other site 1007105003690 active site 1007105003691 hypothetical protein; Provisional; Region: PRK11820 1007105003692 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1007105003693 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1007105003694 SapC; Region: SapC; pfam07277 1007105003695 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1007105003696 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1007105003697 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1007105003698 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1007105003699 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1007105003700 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 1007105003701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003702 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1007105003703 putative effector binding pocket; other site 1007105003704 putative dimerization interface [polypeptide binding]; other site 1007105003705 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1007105003706 tartrate dehydrogenase; Region: TTC; TIGR02089 1007105003707 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105003708 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1007105003709 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1007105003710 NRDE protein; Region: NRDE; cl01315 1007105003711 Predicted esterase [General function prediction only]; Region: COG0400 1007105003712 putative hydrolase; Provisional; Region: PRK11460 1007105003713 DNA Polymerase Y-family; Region: PolY_like; cd03468 1007105003714 DNA binding site [nucleotide binding] 1007105003715 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1007105003716 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1007105003717 putative active site [active] 1007105003718 putative PHP Thumb interface [polypeptide binding]; other site 1007105003719 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 1007105003720 generic binding surface II; other site 1007105003721 generic binding surface I; other site 1007105003722 Yqey-like protein; Region: YqeY; pfam09424 1007105003723 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1007105003724 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 1007105003725 FMN binding site [chemical binding]; other site 1007105003726 active site 1007105003727 substrate binding site [chemical binding]; other site 1007105003728 catalytic residue [active] 1007105003729 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1007105003730 TrkA-N domain; Region: TrkA_N; pfam02254 1007105003731 TrkA-C domain; Region: TrkA_C; pfam02080 1007105003732 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1007105003733 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1007105003734 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1007105003735 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1007105003736 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105003737 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1007105003738 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1007105003739 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1007105003740 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1007105003741 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105003742 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1007105003743 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1007105003744 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1007105003745 HAMP domain; Region: HAMP; pfam00672 1007105003746 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 1007105003747 dimer interface [polypeptide binding]; other site 1007105003748 phosphorylation site [posttranslational modification] 1007105003749 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1007105003750 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 1007105003751 ATP binding site [chemical binding]; other site 1007105003752 Mg2+ binding site [ion binding]; other site 1007105003753 G-X-G motif; other site 1007105003754 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1007105003755 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 1007105003756 active site 1007105003757 phosphorylation site [posttranslational modification] 1007105003758 intermolecular recognition site; other site 1007105003759 dimerization interface [polypeptide binding]; other site 1007105003760 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 1007105003761 Walker A motif; other site 1007105003762 ATP binding site [chemical binding]; other site 1007105003763 Walker B motif; other site 1007105003764 arginine finger; other site 1007105003765 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1007105003766 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 1007105003767 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 1007105003768 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 1007105003769 putative active site [active] 1007105003770 putative metal binding site [ion binding]; other site 1007105003771 N-glycosyltransferase; Provisional; Region: PRK11204 1007105003772 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1007105003773 DXD motif; other site 1007105003774 PgaD-like protein; Region: PgaD; pfam13994 1007105003775 Curli assembly protein CsgE; Region: CsgE; cl08115 1007105003776 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1007105003777 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1007105003778 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1007105003779 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; cl11667 1007105003780 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1007105003781 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 1007105003782 DNA binding residues [nucleotide binding] 1007105003783 dimerization interface [polypeptide binding]; other site 1007105003784 Domain of unknown function DUF59; Region: DUF59; cl00941 1007105003785 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1007105003786 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1007105003787 trimerization site [polypeptide binding]; other site 1007105003788 active site 1007105003789 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1007105003790 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 1007105003791 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105003792 catalytic residue [active] 1007105003793 FeS assembly protein SufD; Region: sufD; TIGR01981 1007105003794 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1007105003795 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1007105003796 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1007105003797 Walker A/P-loop; other site 1007105003798 ATP binding site [chemical binding]; other site 1007105003799 Q-loop/lid; other site 1007105003800 ABC transporter signature motif; other site 1007105003801 Walker B; other site 1007105003802 D-loop; other site 1007105003803 H-loop/switch region; other site 1007105003804 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1007105003805 putative ABC transporter; Region: ycf24; CHL00085 1007105003806 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1007105003807 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 1007105003808 putative Zn2+ binding site [ion binding]; other site 1007105003809 putative DNA binding site [nucleotide binding]; other site 1007105003810 dimerization interface [polypeptide binding]; other site 1007105003811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105003812 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 1007105003813 dimer interface [polypeptide binding]; other site 1007105003814 phosphorylation site [posttranslational modification] 1007105003815 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 1007105003816 ATP binding site [chemical binding]; other site 1007105003817 Mg2+ binding site [ion binding]; other site 1007105003818 G-X-G motif; other site 1007105003819 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1007105003820 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1007105003821 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1007105003822 Walker A/P-loop; other site 1007105003823 ATP binding site [chemical binding]; other site 1007105003824 Q-loop/lid; other site 1007105003825 ABC transporter signature motif; other site 1007105003826 Walker B; other site 1007105003827 D-loop; other site 1007105003828 H-loop/switch region; other site 1007105003829 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105003830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105003831 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1007105003832 putative dimerization interface [polypeptide binding]; other site 1007105003833 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1007105003834 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105003835 RNA polymerase sigma factor; Provisional; Region: PRK12537 1007105003836 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105003837 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 1007105003838 DNA binding residues [nucleotide binding] 1007105003839 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1007105003840 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1007105003841 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1007105003842 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1007105003843 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1007105003844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105003845 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1007105003846 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1007105003847 DNA binding residues [nucleotide binding] 1007105003848 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 1007105003849 IHF - DNA interface [nucleotide binding]; other site 1007105003850 IHF dimer interface [polypeptide binding]; other site 1007105003851 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1007105003852 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 1007105003853 putative tRNA-binding site [nucleotide binding]; other site 1007105003854 B3/4 domain; Region: B3_4; pfam03483 1007105003855 tRNA synthetase B5 domain; Region: B5; smart00874 1007105003856 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 1007105003857 dimer interface [polypeptide binding]; other site 1007105003858 motif 1; other site 1007105003859 motif 3; other site 1007105003860 motif 2; other site 1007105003861 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1007105003862 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1007105003863 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1007105003864 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 1007105003865 dimer interface [polypeptide binding]; other site 1007105003866 motif 1; other site 1007105003867 active site 1007105003868 motif 2; other site 1007105003869 motif 3; other site 1007105003870 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1007105003871 23S rRNA binding site [nucleotide binding]; other site 1007105003872 L21 binding site [polypeptide binding]; other site 1007105003873 L13 binding site [polypeptide binding]; other site 1007105003874 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1007105003875 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1007105003876 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1007105003877 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1007105003878 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1007105003879 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1007105003880 Membrane fusogenic activity; Region: BMFP; pfam04380 1007105003881 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1007105003882 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1007105003883 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1007105003884 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1007105003885 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1007105003886 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1007105003887 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1007105003888 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 1007105003889 dimerization domain swap beta strand [polypeptide binding]; other site 1007105003890 regulatory protein interface [polypeptide binding]; other site 1007105003891 active site 1007105003892 regulatory phosphorylation site [posttranslational modification]; other site 1007105003893 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1007105003894 active pocket/dimerization site; other site 1007105003895 active site 1007105003896 phosphorylation site [posttranslational modification] 1007105003897 glutathione synthetase; Provisional; Region: PRK05246 1007105003898 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1007105003899 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1007105003900 translation initiation factor IF-3; Region: infC; TIGR00168 1007105003901 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1007105003902 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1007105003903 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1007105003904 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 1007105003905 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1007105003906 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 1007105003907 active site 1007105003908 dimer interface [polypeptide binding]; other site 1007105003909 motif 1; other site 1007105003910 motif 2; other site 1007105003911 motif 3; other site 1007105003912 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 1007105003913 anticodon binding site; other site 1007105003914 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1007105003915 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 1007105003916 N-terminal plug; other site 1007105003917 ligand-binding site [chemical binding]; other site 1007105003918 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 1007105003919 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1007105003920 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1007105003921 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105003922 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 1007105003923 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1007105003924 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 1007105003925 active site 1007105003926 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1007105003927 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1007105003928 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1007105003929 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1007105003930 dimerization interface 3.5A [polypeptide binding]; other site 1007105003931 active site 1007105003932 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1007105003933 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1007105003934 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1007105003935 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1007105003936 tartrate dehydrogenase; Region: TTC; TIGR02089 1007105003937 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1007105003938 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 1007105003939 substrate binding site [chemical binding]; other site 1007105003940 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1007105003941 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1007105003942 substrate binding site [chemical binding]; other site 1007105003943 ligand binding site [chemical binding]; other site 1007105003944 Peptidase family M48; Region: Peptidase_M48; pfam01435 1007105003945 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1007105003946 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1007105003947 Tetramer interface [polypeptide binding]; other site 1007105003948 active site 1007105003949 FMN-binding site [chemical binding]; other site 1007105003950 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1007105003951 hypothetical protein; Validated; Region: PRK00029 1007105003952 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1007105003953 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1007105003954 FOG: CBS domain [General function prediction only]; Region: COG0517 1007105003955 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 1007105003956 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1007105003957 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 1007105003958 FMN binding site [chemical binding]; other site 1007105003959 active site 1007105003960 catalytic residues [active] 1007105003961 substrate binding site [chemical binding]; other site 1007105003962 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1007105003963 GAF domain; Region: GAF; pfam01590 1007105003964 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1007105003965 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1007105003966 homodimer interface [polypeptide binding]; other site 1007105003967 catalytic residues [active] 1007105003968 NAD binding site [chemical binding]; other site 1007105003969 substrate binding pocket [chemical binding]; other site 1007105003970 flexible flap; other site 1007105003971 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105003972 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105003973 putative ligand binding site [chemical binding]; other site 1007105003974 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1007105003975 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 1007105003976 putative active site [active] 1007105003977 putative substrate binding site [chemical binding]; other site 1007105003978 ATP binding site [chemical binding]; other site 1007105003979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105003980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105003981 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1007105003982 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105003983 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105003984 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1007105003985 acyl-activating enzyme (AAE) consensus motif; other site 1007105003986 acyl-activating enzyme (AAE) consensus motif; other site 1007105003987 putative AMP binding site [chemical binding]; other site 1007105003988 putative active site [active] 1007105003989 putative CoA binding site [chemical binding]; other site 1007105003990 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105003991 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105003992 Walker A/P-loop; other site 1007105003993 ATP binding site [chemical binding]; other site 1007105003994 Q-loop/lid; other site 1007105003995 ABC transporter signature motif; other site 1007105003996 Walker B; other site 1007105003997 D-loop; other site 1007105003998 H-loop/switch region; other site 1007105003999 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105004000 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 1007105004001 putative ligand binding site [chemical binding]; other site 1007105004002 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105004003 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105004004 TM-ABC transporter signature motif; other site 1007105004005 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105004006 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105004007 TM-ABC transporter signature motif; other site 1007105004008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105004009 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105004010 Walker A/P-loop; other site 1007105004011 ATP binding site [chemical binding]; other site 1007105004012 Q-loop/lid; other site 1007105004013 ABC transporter signature motif; other site 1007105004014 Walker B; other site 1007105004015 D-loop; other site 1007105004016 H-loop/switch region; other site 1007105004017 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1007105004018 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1007105004019 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105004020 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1007105004021 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1007105004022 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1007105004023 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 1007105004024 phosphopeptide binding site; other site 1007105004025 Type II/IV secretion system protein; Region: T2SE; pfam00437 1007105004026 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 1007105004027 ATP binding site [chemical binding]; other site 1007105004028 Walker A motif; other site 1007105004029 hexamer interface [polypeptide binding]; other site 1007105004030 Walker B motif; other site 1007105004031 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1007105004032 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1007105004033 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1007105004034 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1007105004035 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1007105004036 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 1007105004037 S-adenosylmethionine binding site [chemical binding]; other site 1007105004038 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1007105004039 putative hydrolase; Provisional; Region: PRK02113 1007105004040 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1007105004041 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1007105004042 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 1007105004043 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1007105004044 active site 1007105004045 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1007105004046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105004047 Walker A/P-loop; other site 1007105004048 ATP binding site [chemical binding]; other site 1007105004049 Q-loop/lid; other site 1007105004050 ABC transporter signature motif; other site 1007105004051 Walker B; other site 1007105004052 D-loop; other site 1007105004053 H-loop/switch region; other site 1007105004054 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1007105004055 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105004056 Walker A/P-loop; other site 1007105004057 ATP binding site [chemical binding]; other site 1007105004058 Q-loop/lid; other site 1007105004059 ABC transporter signature motif; other site 1007105004060 Walker B; other site 1007105004061 D-loop; other site 1007105004062 H-loop/switch region; other site 1007105004063 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105004064 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1007105004065 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1007105004066 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 1007105004067 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1007105004068 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1007105004069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105004070 DNA-binding site [nucleotide binding]; DNA binding site 1007105004071 UTRA domain; Region: UTRA; pfam07702 1007105004072 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1007105004073 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 1007105004074 dimer interface [polypeptide binding]; other site 1007105004075 conserved gate region; other site 1007105004076 ABC-ATPase subunit interface; other site 1007105004077 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1007105004078 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1007105004079 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1007105004080 Walker A/P-loop; other site 1007105004081 ATP binding site [chemical binding]; other site 1007105004082 Q-loop/lid; other site 1007105004083 ABC transporter signature motif; other site 1007105004084 Walker B; other site 1007105004085 D-loop; other site 1007105004086 H-loop/switch region; other site 1007105004087 Entericidin EcnA/B family; Region: Entericidin; cl02322 1007105004088 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 1007105004089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105004090 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 1007105004091 dimer interface [polypeptide binding]; other site 1007105004092 substrate binding site [chemical binding]; other site 1007105004093 metal binding sites [ion binding]; metal-binding site 1007105004094 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1007105004095 HemY protein N-terminus; Region: HemY_N; pfam07219 1007105004096 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1007105004097 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1007105004098 active site 1007105004099 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1007105004100 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1007105004101 domain interfaces; other site 1007105004102 active site 1007105004103 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1007105004104 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1007105004105 CoA binding domain; Region: CoA_binding; smart00881 1007105004106 CoA-ligase; Region: Ligase_CoA; pfam00549 1007105004107 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1007105004108 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1007105004109 CoA-ligase; Region: Ligase_CoA; pfam00549 1007105004110 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1007105004111 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1007105004112 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1007105004113 THF binding site; other site 1007105004114 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1007105004115 substrate binding site [chemical binding]; other site 1007105004116 THF binding site; other site 1007105004117 zinc-binding site [ion binding]; other site 1007105004118 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1007105004119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105004120 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1007105004121 putative dimerization interface [polypeptide binding]; other site 1007105004122 RecX family; Region: RecX; cl00936 1007105004123 recombinase A; Provisional; Region: recA; PRK09354 1007105004124 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 1007105004125 hexamer interface [polypeptide binding]; other site 1007105004126 Walker A motif; other site 1007105004127 ATP binding site [chemical binding]; other site 1007105004128 Walker B motif; other site 1007105004129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105004130 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 1007105004131 active site 1007105004132 phosphorylation site [posttranslational modification] 1007105004133 intermolecular recognition site; other site 1007105004134 dimerization interface [polypeptide binding]; other site 1007105004135 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 1007105004136 DNA binding site [nucleotide binding] 1007105004137 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1007105004138 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 1007105004139 dimer interface [polypeptide binding]; other site 1007105004140 phosphorylation site [posttranslational modification] 1007105004141 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 1007105004142 ATP binding site [chemical binding]; other site 1007105004143 G-X-G motif; other site 1007105004144 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 1007105004145 putative substrate translocation pore; other site 1007105004146 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1007105004147 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1007105004148 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1007105004149 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1007105004150 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 1007105004151 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 1007105004152 Transglycosylase; Region: Transgly; pfam00912 1007105004153 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1007105004154 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1007105004155 MG2 domain; Region: A2M_N; pfam01835 1007105004156 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 1007105004157 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1007105004158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105004159 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105004160 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 1007105004161 DNA-binding site [nucleotide binding]; DNA binding site 1007105004162 RNA-binding motif; other site 1007105004163 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; cl07510 1007105004164 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1007105004165 Predicted transcriptional regulator [Transcription]; Region: COG1959 1007105004166 Transcriptional regulator; Region: Rrf2; pfam02082 1007105004167 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1007105004168 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1007105004169 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 1007105004170 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1007105004171 dinuclear metal binding motif [ion binding]; other site 1007105004172 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 1007105004173 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105004174 putative substrate translocation pore; other site 1007105004175 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1007105004176 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1007105004177 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1007105004178 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1007105004179 potassium uptake protein; Region: kup; TIGR00794 1007105004180 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1007105004181 MgtC family; Region: MgtC; pfam02308 1007105004182 Benzoate membrane transport protein; Region: BenE; pfam03594 1007105004183 benzoate transporter; Region: benE; TIGR00843 1007105004184 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1007105004185 putative active site [active] 1007105004186 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1007105004187 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1007105004188 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1007105004189 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1007105004190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105004191 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1007105004192 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 1007105004193 DNA binding residues [nucleotide binding] 1007105004194 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1007105004195 DNA primase, catalytic core; Region: dnaG; TIGR01391 1007105004196 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1007105004197 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 1007105004198 active site 1007105004199 metal binding site [ion binding]; metal-binding site 1007105004200 interdomain interaction site; other site 1007105004201 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1007105004202 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1007105004203 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1007105004204 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1007105004205 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105004206 active site 1007105004207 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1007105004208 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 1007105004209 GDP-binding site [chemical binding]; other site 1007105004210 ACT binding site; other site 1007105004211 IMP binding site; other site 1007105004212 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1007105004213 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 1007105004214 dimer interface [polypeptide binding]; other site 1007105004215 motif 1; other site 1007105004216 active site 1007105004217 motif 2; other site 1007105004218 motif 3; other site 1007105004219 HflC protein; Region: hflC; TIGR01932 1007105004220 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 1007105004221 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1007105004222 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 1007105004223 HflK protein; Region: hflK; TIGR01933 1007105004224 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1007105004225 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1007105004226 HflX GTPase family; Region: HflX; cd01878 1007105004227 G1 box; other site 1007105004228 GTP/Mg2+ binding site [chemical binding]; other site 1007105004229 Switch I region; other site 1007105004230 G2 box; other site 1007105004231 G3 box; other site 1007105004232 Switch II region; other site 1007105004233 G4 box; other site 1007105004234 G5 box; other site 1007105004235 bacterial Hfq-like; Region: Hfq; cd01716 1007105004236 hexamer interface [polypeptide binding]; other site 1007105004237 Sm1 motif; other site 1007105004238 RNA binding site [nucleotide binding]; other site 1007105004239 Sm2 motif; other site 1007105004240 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1007105004241 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 1007105004242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004243 homodimer interface [polypeptide binding]; other site 1007105004244 catalytic residue [active] 1007105004245 GTP-binding protein Der; Reviewed; Region: PRK00093 1007105004246 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1007105004247 G1 box; other site 1007105004248 GTP/Mg2+ binding site [chemical binding]; other site 1007105004249 Switch I region; other site 1007105004250 G2 box; other site 1007105004251 Switch II region; other site 1007105004252 G3 box; other site 1007105004253 G4 box; other site 1007105004254 G5 box; other site 1007105004255 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1007105004256 G1 box; other site 1007105004257 GTP/Mg2+ binding site [chemical binding]; other site 1007105004258 Switch I region; other site 1007105004259 G2 box; other site 1007105004260 G3 box; other site 1007105004261 Switch II region; other site 1007105004262 G4 box; other site 1007105004263 G5 box; other site 1007105004264 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1007105004265 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1007105004266 Trp docking motif [polypeptide binding]; other site 1007105004267 active site 1007105004268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1007105004269 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1007105004270 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1007105004271 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 1007105004272 dimer interface [polypeptide binding]; other site 1007105004273 motif 1; other site 1007105004274 active site 1007105004275 motif 2; other site 1007105004276 motif 3; other site 1007105004277 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 1007105004278 anticodon binding site; other site 1007105004279 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1007105004280 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1007105004281 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1007105004282 Helix-turn-helix domain; Region: HTH_25; pfam13413 1007105004283 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1007105004284 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 1007105004285 active site 1007105004286 multimer interface [polypeptide binding]; other site 1007105004287 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1007105004288 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1007105004289 active site 1007105004290 HIGH motif; other site 1007105004291 nucleotide binding site [chemical binding]; other site 1007105004292 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1007105004293 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1007105004294 active site 1007105004295 KMSKS motif; other site 1007105004296 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1007105004297 tRNA binding surface [nucleotide binding]; other site 1007105004298 anticodon binding site; other site 1007105004299 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1007105004300 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1007105004301 CoA binding domain; Region: CoA_binding_2; pfam13380 1007105004302 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1007105004303 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1007105004304 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105004305 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 1007105004306 substrate binding site [chemical binding]; other site 1007105004307 oxyanion hole (OAH) forming residues; other site 1007105004308 trimer interface [polypeptide binding]; other site 1007105004309 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105004310 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105004311 active site pocket [active] 1007105004312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105004313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105004314 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1007105004315 putative dimerization interface [polypeptide binding]; other site 1007105004316 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1007105004317 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1007105004318 RimM N-terminal domain; Region: RimM; pfam01782 1007105004319 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1007105004320 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1007105004321 CPxP motif; other site 1007105004322 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1007105004323 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 1007105004324 motif 1; other site 1007105004325 active site 1007105004326 motif 2; other site 1007105004327 motif 3; other site 1007105004328 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1007105004329 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 1007105004330 Walker A motif; other site 1007105004331 ATP binding site [chemical binding]; other site 1007105004332 Walker B motif; other site 1007105004333 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1007105004334 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1007105004335 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1007105004336 VirB7 interaction site; other site 1007105004337 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1007105004338 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1007105004339 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1007105004340 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1007105004341 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1007105004342 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1007105004343 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1007105004344 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 1007105004345 catalytic loop [active] 1007105004346 iron binding site [ion binding]; other site 1007105004347 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1007105004348 FAD binding pocket [chemical binding]; other site 1007105004349 FAD binding motif [chemical binding]; other site 1007105004350 phosphate binding motif [ion binding]; other site 1007105004351 beta-alpha-beta structure motif; other site 1007105004352 NAD binding pocket [chemical binding]; other site 1007105004353 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1007105004354 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 1007105004355 CAP-like domain; other site 1007105004356 active site 1007105004357 primary dimer interface [polypeptide binding]; other site 1007105004358 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1007105004359 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 1007105004360 ATP binding site [chemical binding]; other site 1007105004361 Mg2+ binding site [ion binding]; other site 1007105004362 G-X-G motif; other site 1007105004363 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 1007105004364 anchoring element; other site 1007105004365 dimer interface [polypeptide binding]; other site 1007105004366 ATP binding site [chemical binding]; other site 1007105004367 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 1007105004368 active site 1007105004369 metal binding site [ion binding]; metal-binding site 1007105004370 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1007105004371 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 1007105004372 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105004373 catalytic residues [active] 1007105004374 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1007105004375 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1007105004376 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 1007105004377 RNA binding site [nucleotide binding]; other site 1007105004378 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 1007105004379 multimer interface [polypeptide binding]; other site 1007105004380 Walker A motif; other site 1007105004381 ATP binding site [chemical binding]; other site 1007105004382 Walker B motif; other site 1007105004383 glutamate dehydrogenase; Provisional; Region: PRK09414 1007105004384 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1007105004385 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1007105004386 NAD(P) binding site [chemical binding]; other site 1007105004387 TIGR02099 family protein; Region: TIGR02099 1007105004388 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1007105004389 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1007105004390 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1007105004391 metal binding triad; other site 1007105004392 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1007105004393 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1007105004394 metal binding triad; other site 1007105004395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1007105004396 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1007105004397 Clp amino terminal domain; Region: Clp_N; pfam02861 1007105004398 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 1007105004399 Walker A motif; other site 1007105004400 ATP binding site [chemical binding]; other site 1007105004401 Walker B motif; other site 1007105004402 arginine finger; other site 1007105004403 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 1007105004404 Walker A motif; other site 1007105004405 ATP binding site [chemical binding]; other site 1007105004406 Walker B motif; other site 1007105004407 arginine finger; other site 1007105004408 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1007105004409 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1007105004410 PemK-like protein; Region: PemK; cl00995 1007105004411 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1007105004412 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 1007105004413 ligand binding site [chemical binding]; other site 1007105004414 flexible hinge region; other site 1007105004415 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 1007105004416 putative switch regulator; other site 1007105004417 non-specific DNA interactions [nucleotide binding]; other site 1007105004418 DNA binding site [nucleotide binding] 1007105004419 sequence specific DNA binding site [nucleotide binding]; other site 1007105004420 putative cAMP binding site [chemical binding]; other site 1007105004421 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1007105004422 putative active site [active] 1007105004423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1007105004424 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1007105004425 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1007105004426 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 1007105004427 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1007105004428 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1007105004429 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105004430 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1007105004431 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1007105004432 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1007105004433 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1007105004434 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1007105004435 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1007105004436 Low-spin heme binding site [chemical binding]; other site 1007105004437 Putative water exit pathway; other site 1007105004438 Binuclear center (active site) [active] 1007105004439 Putative proton exit pathway; other site 1007105004440 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1007105004441 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1007105004442 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1007105004443 isocitrate lyase; Provisional; Region: PRK15063 1007105004444 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1007105004445 tetramer interface [polypeptide binding]; other site 1007105004446 active site 1007105004447 Mg2+/Mn2+ binding site [ion binding]; other site 1007105004448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1007105004449 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1007105004450 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1007105004451 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 1007105004452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105004453 putative substrate translocation pore; other site 1007105004454 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1007105004455 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1007105004456 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1007105004457 GIY-YIG motif/motif A; other site 1007105004458 active site 1007105004459 catalytic site [active] 1007105004460 putative DNA binding site [nucleotide binding]; other site 1007105004461 metal binding site [ion binding]; metal-binding site 1007105004462 UvrB/uvrC motif; Region: UVR; pfam02151 1007105004463 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1007105004464 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1007105004465 beta-hexosaminidase; Provisional; Region: PRK05337 1007105004466 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1007105004467 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1007105004468 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1007105004469 active site 1007105004470 AMP binding site [chemical binding]; other site 1007105004471 homodimer interface [polypeptide binding]; other site 1007105004472 acyl-activating enzyme (AAE) consensus motif; other site 1007105004473 CoA binding site [chemical binding]; other site 1007105004474 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1007105004475 CoenzymeA binding site [chemical binding]; other site 1007105004476 subunit interaction site [polypeptide binding]; other site 1007105004477 PHB binding site; other site 1007105004478 enoyl-CoA hydratase; Provisional; Region: PRK08140 1007105004479 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 1007105004480 substrate binding site [chemical binding]; other site 1007105004481 oxyanion hole (OAH) forming residues; other site 1007105004482 trimer interface [polypeptide binding]; other site 1007105004483 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1007105004484 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 1007105004485 NADP binding site [chemical binding]; other site 1007105004486 catalytic residues [active] 1007105004487 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1007105004488 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1007105004489 FAD binding pocket [chemical binding]; other site 1007105004490 FAD binding motif [chemical binding]; other site 1007105004491 phosphate binding motif [ion binding]; other site 1007105004492 beta-alpha-beta structure motif; other site 1007105004493 NAD(p) ribose binding residues [chemical binding]; other site 1007105004494 NAD binding pocket [chemical binding]; other site 1007105004495 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1007105004496 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 1007105004497 catalytic loop [active] 1007105004498 iron binding site [ion binding]; other site 1007105004499 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1007105004500 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1007105004501 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1007105004502 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1007105004503 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1007105004504 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1007105004505 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1007105004506 PaaX-like protein; Region: PaaX; pfam07848 1007105004507 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1007105004508 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1007105004509 putative active site [active] 1007105004510 putative substrate binding site [chemical binding]; other site 1007105004511 catalytic site [active] 1007105004512 dimer interface [polypeptide binding]; other site 1007105004513 Peptidase family M48; Region: Peptidase_M48; pfam01435 1007105004514 GTPase RsgA; Reviewed; Region: PRK00098 1007105004515 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1007105004516 RNA binding site [nucleotide binding]; other site 1007105004517 homodimer interface [polypeptide binding]; other site 1007105004518 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1007105004519 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1007105004520 GTP/Mg2+ binding site [chemical binding]; other site 1007105004521 G4 box; other site 1007105004522 G5 box; other site 1007105004523 G1 box; other site 1007105004524 Switch I region; other site 1007105004525 G2 box; other site 1007105004526 G3 box; other site 1007105004527 Switch II region; other site 1007105004528 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1007105004529 putative active site [active] 1007105004530 putative CoA binding site [chemical binding]; other site 1007105004531 nudix motif; other site 1007105004532 metal binding site [ion binding]; metal-binding site 1007105004533 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1007105004534 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1007105004535 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 1007105004536 dimer interface [polypeptide binding]; other site 1007105004537 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1007105004538 catalytic triad [active] 1007105004539 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1007105004540 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1007105004541 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105004542 active site 1007105004543 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1007105004544 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1007105004545 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 1007105004546 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1007105004547 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 1007105004548 Ligand binding site [chemical binding]; other site 1007105004549 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1007105004550 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1007105004551 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1007105004552 putative active site [active] 1007105004553 Zn binding site [ion binding]; other site 1007105004554 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1007105004555 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 1007105004556 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105004557 cysteine synthase B; Region: cysM; TIGR01138 1007105004558 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 1007105004559 dimer interface [polypeptide binding]; other site 1007105004560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004561 catalytic residue [active] 1007105004562 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1007105004563 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1007105004564 putative DNA binding site [nucleotide binding]; other site 1007105004565 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1007105004566 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1007105004567 NADP binding site [chemical binding]; other site 1007105004568 homopentamer interface [polypeptide binding]; other site 1007105004569 substrate binding site [chemical binding]; other site 1007105004570 active site 1007105004571 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1007105004572 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1007105004573 putative ribose interaction site [chemical binding]; other site 1007105004574 putative ADP binding site [chemical binding]; other site 1007105004575 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1007105004576 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 1007105004577 binding surface 1007105004578 TPR motif; other site 1007105004579 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 1007105004580 IHF - DNA interface [nucleotide binding]; other site 1007105004581 IHF dimer interface [polypeptide binding]; other site 1007105004582 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1007105004583 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 1007105004584 RNA binding site [nucleotide binding]; other site 1007105004585 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 1007105004586 RNA binding site [nucleotide binding]; other site 1007105004587 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 1007105004588 RNA binding site [nucleotide binding]; other site 1007105004589 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1007105004590 RNA binding site [nucleotide binding]; other site 1007105004591 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 1007105004592 RNA binding site [nucleotide binding]; other site 1007105004593 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 1007105004594 RNA binding site [nucleotide binding]; other site 1007105004595 cytidylate kinase; Provisional; Region: cmk; PRK00023 1007105004596 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 1007105004597 CMP-binding site; other site 1007105004598 The sites determining sugar specificity; other site 1007105004599 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 1007105004600 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 1007105004601 hinge; other site 1007105004602 active site 1007105004603 prephenate dehydrogenase; Validated; Region: PRK08507 1007105004604 Prephenate dehydrogenase; Region: PDH; pfam02153 1007105004605 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1007105004606 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 1007105004607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004608 homodimer interface [polypeptide binding]; other site 1007105004609 catalytic residue [active] 1007105004610 Chorismate mutase type II; Region: CM_2; cl00693 1007105004611 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1007105004612 Prephenate dehydratase; Region: PDT; pfam00800 1007105004613 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 1007105004614 putative L-Phe binding site [chemical binding]; other site 1007105004615 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1007105004616 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105004617 catalytic residue [active] 1007105004618 DNA gyrase subunit A; Validated; Region: PRK05560 1007105004619 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 1007105004620 CAP-like domain; other site 1007105004621 active site 1007105004622 primary dimer interface [polypeptide binding]; other site 1007105004623 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004624 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004625 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004626 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004627 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004628 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1007105004629 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1007105004630 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105004631 ligand binding site [chemical binding]; other site 1007105004632 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1007105004633 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 1007105004634 S-adenosylmethionine binding site [chemical binding]; other site 1007105004635 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1007105004636 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 1007105004637 motif II; other site 1007105004638 serine/threonine transporter SstT; Provisional; Region: PRK13628 1007105004639 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1007105004640 rusticyanin; Region: rusti_cyanin; TIGR03095 1007105004641 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1007105004642 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1007105004643 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1007105004644 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105004645 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1007105004646 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 1007105004647 ATP binding site [chemical binding]; other site 1007105004648 Mg++ binding site [ion binding]; other site 1007105004649 motif III; other site 1007105004650 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 1007105004651 nucleotide binding region [chemical binding]; other site 1007105004652 ATP-binding site [chemical binding]; other site 1007105004653 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1007105004654 putative RNA binding site [nucleotide binding]; other site 1007105004655 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1007105004656 dimerization interface [polypeptide binding]; other site 1007105004657 active site 1007105004658 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105004659 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105004660 Walker A/P-loop; other site 1007105004661 ATP binding site [chemical binding]; other site 1007105004662 Q-loop/lid; other site 1007105004663 ABC transporter signature motif; other site 1007105004664 Walker B; other site 1007105004665 D-loop; other site 1007105004666 H-loop/switch region; other site 1007105004667 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105004668 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105004669 TM-ABC transporter signature motif; other site 1007105004670 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105004671 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105004672 Walker A/P-loop; other site 1007105004673 ATP binding site [chemical binding]; other site 1007105004674 Q-loop/lid; other site 1007105004675 ABC transporter signature motif; other site 1007105004676 Walker B; other site 1007105004677 D-loop; other site 1007105004678 H-loop/switch region; other site 1007105004679 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105004680 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105004681 TM-ABC transporter signature motif; other site 1007105004682 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105004683 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105004684 putative ligand binding site [chemical binding]; other site 1007105004685 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 1007105004686 nucleotide binding site [chemical binding]; other site 1007105004687 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1007105004688 homotrimer interaction site [polypeptide binding]; other site 1007105004689 putative active site [active] 1007105004690 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1007105004691 DctM-like transporters; Region: DctM; pfam06808 1007105004692 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1007105004693 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1007105004694 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105004695 Beta-lactamase; Region: Beta-lactamase; pfam00144 1007105004696 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 1007105004697 cofactor binding site; other site 1007105004698 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 1007105004699 DNA binding site [nucleotide binding] 1007105004700 active site 1007105004701 Int/Topo IB signature motif; other site 1007105004702 adenylosuccinate lyase; Provisional; Region: PRK09285 1007105004703 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1007105004704 tetramer interface [polypeptide binding]; other site 1007105004705 active site 1007105004706 putative glutathione S-transferase; Provisional; Region: PRK10357 1007105004707 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 1007105004708 putative C-terminal domain interface [polypeptide binding]; other site 1007105004709 putative GSH binding site (G-site) [chemical binding]; other site 1007105004710 putative dimer interface [polypeptide binding]; other site 1007105004711 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1007105004712 dimer interface [polypeptide binding]; other site 1007105004713 N-terminal domain interface [polypeptide binding]; other site 1007105004714 putative substrate binding pocket (H-site) [chemical binding]; other site 1007105004715 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105004716 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1007105004717 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 1007105004718 Ligand Binding Site [chemical binding]; other site 1007105004719 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1007105004720 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 1007105004721 Cysteine-rich domain; Region: CCG; pfam02754 1007105004722 Cysteine-rich domain; Region: CCG; pfam02754 1007105004723 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1007105004724 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105004725 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1007105004726 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105004727 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105004728 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105004729 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1007105004730 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1007105004731 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 1007105004732 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105004733 substrate binding pocket [chemical binding]; other site 1007105004734 membrane-bound complex binding site; other site 1007105004735 hinge residues; other site 1007105004736 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105004737 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 1007105004738 dimer interface [polypeptide binding]; other site 1007105004739 conserved gate region; other site 1007105004740 putative PBP binding loops; other site 1007105004741 ABC-ATPase subunit interface; other site 1007105004742 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 1007105004743 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 1007105004744 putative PBP binding loops; other site 1007105004745 dimer interface [polypeptide binding]; other site 1007105004746 ABC-ATPase subunit interface; other site 1007105004747 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105004748 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105004749 Walker A/P-loop; other site 1007105004750 ATP binding site [chemical binding]; other site 1007105004751 Q-loop/lid; other site 1007105004752 ABC transporter signature motif; other site 1007105004753 Walker B; other site 1007105004754 D-loop; other site 1007105004755 H-loop/switch region; other site 1007105004756 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1007105004757 Ectoine synthase; Region: Ectoine_synth; pfam06339 1007105004758 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1007105004759 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 1007105004760 inhibitor-cofactor binding pocket; inhibition site 1007105004761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004762 catalytic residue [active] 1007105004763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105004764 Coenzyme A binding pocket [chemical binding]; other site 1007105004765 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1007105004766 MarR family; Region: MarR; pfam01047 1007105004767 protease TldD; Provisional; Region: tldD; PRK10735 1007105004768 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1007105004769 putative active site [active] 1007105004770 catalytic triad [active] 1007105004771 dimer interface [polypeptide binding]; other site 1007105004772 H-NS histone family; Region: Histone_HNS; pfam00816 1007105004773 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1007105004774 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1007105004775 aminopeptidase N; Provisional; Region: pepN; PRK14015 1007105004776 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1007105004777 active site 1007105004778 Zn binding site [ion binding]; other site 1007105004779 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1007105004780 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1007105004781 AMP binding site [chemical binding]; other site 1007105004782 metal binding site [ion binding]; metal-binding site 1007105004783 active site 1007105004784 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1007105004785 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1007105004786 NADP binding site [chemical binding]; other site 1007105004787 dimer interface [polypeptide binding]; other site 1007105004788 EamA-like transporter family; Region: EamA; cl17759 1007105004789 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1007105004790 EamA-like transporter family; Region: EamA; pfam00892 1007105004791 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1007105004792 tartrate dehydrogenase; Region: TTC; TIGR02089 1007105004793 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 1007105004794 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1007105004795 Walker A motif; other site 1007105004796 ATP binding site [chemical binding]; other site 1007105004797 hypothetical protein; Validated; Region: PRK00110 1007105004798 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1007105004799 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1007105004800 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1007105004801 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1007105004802 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1007105004803 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1007105004804 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1007105004805 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1007105004806 active site 1007105004807 (T/H)XGH motif; other site 1007105004808 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1007105004809 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1007105004810 pyruvate kinase; Provisional; Region: PRK05826 1007105004811 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 1007105004812 domain interfaces; other site 1007105004813 active site 1007105004814 Maf-like protein; Region: Maf; pfam02545 1007105004815 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 1007105004816 active site 1007105004817 dimer interface [polypeptide binding]; other site 1007105004818 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 1007105004819 active site clefts [active] 1007105004820 zinc binding site [ion binding]; other site 1007105004821 dimer interface [polypeptide binding]; other site 1007105004822 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1007105004823 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1007105004824 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1007105004825 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1007105004826 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1007105004827 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105004828 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105004829 enoyl-CoA hydratase; Provisional; Region: PRK06127 1007105004830 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 1007105004831 substrate binding site [chemical binding]; other site 1007105004832 oxyanion hole (OAH) forming residues; other site 1007105004833 trimer interface [polypeptide binding]; other site 1007105004834 DctM-like transporters; Region: DctM; pfam06808 1007105004835 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105004836 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105004837 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105004838 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105004839 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 1007105004840 homodimer interface [polypeptide binding]; other site 1007105004841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004842 catalytic residue [active] 1007105004843 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105004844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105004845 DNA-binding site [nucleotide binding]; DNA binding site 1007105004846 FCD domain; Region: FCD; pfam07729 1007105004847 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105004848 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105004849 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1007105004850 hypothetical protein; Provisional; Region: PRK11212 1007105004851 DctM-like transporters; Region: DctM; pfam06808 1007105004852 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105004853 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105004854 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105004855 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1007105004856 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105004857 NAD(P) binding site [chemical binding]; other site 1007105004858 catalytic residues [active] 1007105004859 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1007105004860 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1007105004861 active site 1007105004862 metal binding site [ion binding]; metal-binding site 1007105004863 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1007105004864 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1007105004865 hypothetical protein; Validated; Region: PRK06201 1007105004866 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1007105004867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105004868 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 1007105004869 dimerization interface [polypeptide binding]; other site 1007105004870 substrate binding pocket [chemical binding]; other site 1007105004871 PQQ-like domain; Region: PQQ_2; pfam13360 1007105004872 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105004873 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105004874 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105004875 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1007105004876 putative ligand binding site [chemical binding]; other site 1007105004877 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1007105004878 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1007105004879 NAD binding site [chemical binding]; other site 1007105004880 catalytic Zn binding site [ion binding]; other site 1007105004881 substrate binding site [chemical binding]; other site 1007105004882 structural Zn binding site [ion binding]; other site 1007105004883 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1007105004884 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1007105004885 putative NAD(P) binding site [chemical binding]; other site 1007105004886 active site 1007105004887 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105004888 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1007105004889 NAD(P) binding site [chemical binding]; other site 1007105004890 catalytic residues [active] 1007105004891 catalytic residues [active] 1007105004892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105004893 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1007105004894 Walker A/P-loop; other site 1007105004895 ATP binding site [chemical binding]; other site 1007105004896 Q-loop/lid; other site 1007105004897 ABC transporter signature motif; other site 1007105004898 Walker B; other site 1007105004899 D-loop; other site 1007105004900 H-loop/switch region; other site 1007105004901 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105004902 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105004903 Walker A/P-loop; other site 1007105004904 ATP binding site [chemical binding]; other site 1007105004905 Q-loop/lid; other site 1007105004906 ABC transporter signature motif; other site 1007105004907 Walker B; other site 1007105004908 D-loop; other site 1007105004909 H-loop/switch region; other site 1007105004910 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105004911 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105004912 TM-ABC transporter signature motif; other site 1007105004913 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105004914 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105004915 TM-ABC transporter signature motif; other site 1007105004916 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1007105004917 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1007105004918 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 1007105004919 C-terminal domain interface [polypeptide binding]; other site 1007105004920 GSH binding site (G-site) [chemical binding]; other site 1007105004921 dimer interface [polypeptide binding]; other site 1007105004922 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1007105004923 dimer interface [polypeptide binding]; other site 1007105004924 N-terminal domain interface [polypeptide binding]; other site 1007105004925 hypothetical protein; Validated; Region: PRK07586 1007105004926 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105004927 PYR/PP interface [polypeptide binding]; other site 1007105004928 dimer interface [polypeptide binding]; other site 1007105004929 TPP binding site [chemical binding]; other site 1007105004930 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1007105004931 TPP-binding site [chemical binding]; other site 1007105004932 dimer interface [polypeptide binding]; other site 1007105004933 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105004934 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1007105004935 [2Fe-2S] cluster binding site [ion binding]; other site 1007105004936 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 1007105004937 beta subunit interface [polypeptide binding]; other site 1007105004938 alpha subunit interface [polypeptide binding]; other site 1007105004939 active site 1007105004940 substrate binding site [chemical binding]; other site 1007105004941 Fe binding site [ion binding]; other site 1007105004942 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1007105004943 inter-subunit interface; other site 1007105004944 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1007105004945 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105004946 NAD(P) binding site [chemical binding]; other site 1007105004947 catalytic residues [active] 1007105004948 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1007105004949 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1007105004950 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1007105004951 dimerization interface [polypeptide binding]; other site 1007105004952 ligand binding site [chemical binding]; other site 1007105004953 NADP binding site [chemical binding]; other site 1007105004954 catalytic site [active] 1007105004955 Src Homology 3 domain superfamily; Region: SH3; cl17036 1007105004956 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1007105004957 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 1007105004958 catalytic loop [active] 1007105004959 iron binding site [ion binding]; other site 1007105004960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1007105004961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105004962 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105004963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105004964 DNA-binding site [nucleotide binding]; DNA binding site 1007105004965 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105004966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105004967 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 1007105004968 homotrimer interaction site [polypeptide binding]; other site 1007105004969 putative active site [active] 1007105004970 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105004971 hypothetical protein; Validated; Region: PRK07586 1007105004972 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105004973 PYR/PP interface [polypeptide binding]; other site 1007105004974 dimer interface [polypeptide binding]; other site 1007105004975 TPP binding site [chemical binding]; other site 1007105004976 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 1007105004977 TPP-binding site [chemical binding]; other site 1007105004978 dimer interface [polypeptide binding]; other site 1007105004979 aminotransferase; Provisional; Region: PRK06105 1007105004980 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 1007105004981 inhibitor-cofactor binding pocket; inhibition site 1007105004982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105004983 catalytic residue [active] 1007105004984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105004985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105004986 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1007105004987 putative dimerization interface [polypeptide binding]; other site 1007105004988 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105004989 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105004990 active site pocket [active] 1007105004991 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1007105004992 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1007105004993 inhibitor site; inhibition site 1007105004994 active site 1007105004995 dimer interface [polypeptide binding]; other site 1007105004996 catalytic residue [active] 1007105004997 5-oxoprolinase; Region: PLN02666 1007105004998 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1007105004999 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1007105005000 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1007105005001 Pirin-related protein [General function prediction only]; Region: COG1741 1007105005002 Pirin; Region: Pirin; pfam02678 1007105005003 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1007105005004 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1007105005005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1007105005006 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1007105005007 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1007105005008 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 1007105005009 putative catalytic residue [active] 1007105005010 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 1007105005011 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1007105005012 C-terminal domain interface [polypeptide binding]; other site 1007105005013 GSH binding site (G-site) [chemical binding]; other site 1007105005014 putative dimer interface [polypeptide binding]; other site 1007105005015 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1007105005016 dimer interface [polypeptide binding]; other site 1007105005017 N-terminal domain interface [polypeptide binding]; other site 1007105005018 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1007105005019 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1007105005020 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1007105005021 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1007105005022 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1007105005023 hypothetical protein; Reviewed; Region: PRK00024 1007105005024 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1007105005025 MPN+ (JAMM) motif; other site 1007105005026 Zinc-binding site [ion binding]; other site 1007105005027 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105005028 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1007105005029 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1007105005030 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1007105005031 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1007105005032 putative efflux protein, MATE family; Region: matE; TIGR00797 1007105005033 cation binding site [ion binding]; other site 1007105005034 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1007105005035 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1007105005036 Walker A/P-loop; other site 1007105005037 ATP binding site [chemical binding]; other site 1007105005038 Q-loop/lid; other site 1007105005039 ABC transporter signature motif; other site 1007105005040 Walker B; other site 1007105005041 D-loop; other site 1007105005042 H-loop/switch region; other site 1007105005043 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 1007105005044 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105005045 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 1007105005046 dimer interface [polypeptide binding]; other site 1007105005047 conserved gate region; other site 1007105005048 putative PBP binding loops; other site 1007105005049 ABC-ATPase subunit interface; other site 1007105005050 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1007105005051 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1007105005052 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1007105005053 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 1007105005054 S-adenosylmethionine binding site [chemical binding]; other site 1007105005055 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 1007105005056 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1007105005057 putative substrate translocation pore; other site 1007105005058 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1007105005059 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1007105005060 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1007105005061 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1007105005062 HIGH motif; other site 1007105005063 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1007105005064 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1007105005065 active site 1007105005066 KMSKS motif; other site 1007105005067 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1007105005068 tRNA binding surface [nucleotide binding]; other site 1007105005069 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1007105005070 Lipopolysaccharide-assembly; Region: LptE; cl01125 1007105005071 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1007105005072 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1007105005073 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1007105005074 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1007105005075 putative catalytic cysteine [active] 1007105005076 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1007105005077 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1007105005078 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1007105005079 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 1007105005080 RDD family; Region: RDD; pfam06271 1007105005081 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105005082 AMP-binding enzyme; Region: AMP-binding; pfam00501 1007105005083 acyl-activating enzyme (AAE) consensus motif; other site 1007105005084 active site 1007105005085 AMP binding site [chemical binding]; other site 1007105005086 CoA binding site [chemical binding]; other site 1007105005087 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1007105005088 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 1007105005089 dimerization interface [polypeptide binding]; other site 1007105005090 domain crossover interface; other site 1007105005091 redox-dependent activation switch; other site 1007105005092 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1007105005093 TadE-like protein; Region: TadE; pfam07811 1007105005094 Septum formation initiator; Region: DivIC; cl17659 1007105005095 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1007105005096 enolase; Provisional; Region: eno; PRK00077 1007105005097 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 1007105005098 dimer interface [polypeptide binding]; other site 1007105005099 metal binding site [ion binding]; metal-binding site 1007105005100 substrate binding pocket [chemical binding]; other site 1007105005101 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1007105005102 MarR family; Region: MarR; pfam01047 1007105005103 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 1007105005104 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105005105 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 1007105005106 putative substrate translocation pore; other site 1007105005107 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 1007105005108 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1007105005109 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1007105005110 CTP synthetase; Validated; Region: pyrG; PRK05380 1007105005111 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 1007105005112 Catalytic site [active] 1007105005113 active site 1007105005114 UTP binding site [chemical binding]; other site 1007105005115 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1007105005116 active site 1007105005117 putative oxyanion hole; other site 1007105005118 catalytic triad [active] 1007105005119 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1007105005120 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1007105005121 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 1007105005122 active site 1007105005123 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1007105005124 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1007105005125 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 1007105005126 active site 1007105005127 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1007105005128 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1007105005129 EamA-like transporter family; Region: EamA; pfam00892 1007105005130 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1007105005131 EamA-like transporter family; Region: EamA; pfam00892 1007105005132 acetyl-CoA synthetase; Provisional; Region: PRK00174 1007105005133 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1007105005134 active site 1007105005135 CoA binding site [chemical binding]; other site 1007105005136 acyl-activating enzyme (AAE) consensus motif; other site 1007105005137 AMP binding site [chemical binding]; other site 1007105005138 acetate binding site [chemical binding]; other site 1007105005139 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1007105005140 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 1007105005141 Domain of unknown function (DUF336); Region: DUF336; cl01249 1007105005142 NlpC/P60 family; Region: NLPC_P60; pfam00877 1007105005143 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1007105005144 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1007105005145 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 1007105005146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105005147 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1007105005148 substrate binding site [chemical binding]; other site 1007105005149 dimerization interface [polypeptide binding]; other site 1007105005150 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1007105005151 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1007105005152 tetrameric interface [polypeptide binding]; other site 1007105005153 NAD binding site [chemical binding]; other site 1007105005154 catalytic residues [active] 1007105005155 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105005156 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105005157 putative ligand binding site [chemical binding]; other site 1007105005158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105005159 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105005160 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1007105005161 dimerization interface [polypeptide binding]; other site 1007105005162 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1007105005163 Predicted permeases [General function prediction only]; Region: COG0795 1007105005164 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1007105005165 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 1007105005166 interface (dimer of trimers) [polypeptide binding]; other site 1007105005167 Substrate-binding/catalytic site; other site 1007105005168 Zn-binding sites [ion binding]; other site 1007105005169 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1007105005170 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1007105005171 YccA-like proteins; Region: YccA_like; cd10433 1007105005172 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1007105005173 PIN domain; Region: PIN_3; pfam13470 1007105005174 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1007105005175 Recombination protein O N terminal; Region: RecO_N; pfam11967 1007105005176 Recombination protein O C terminal; Region: RecO_C; pfam02565 1007105005177 GTPase Era; Reviewed; Region: era; PRK00089 1007105005178 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1007105005179 G1 box; other site 1007105005180 GTP/Mg2+ binding site [chemical binding]; other site 1007105005181 Switch I region; other site 1007105005182 G2 box; other site 1007105005183 Switch II region; other site 1007105005184 G3 box; other site 1007105005185 G4 box; other site 1007105005186 G5 box; other site 1007105005187 KH domain; Region: KH_2; pfam07650 1007105005188 ribonuclease III; Reviewed; Region: rnc; PRK00102 1007105005189 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 1007105005190 dimerization interface [polypeptide binding]; other site 1007105005191 active site 1007105005192 metal binding site [ion binding]; metal-binding site 1007105005193 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 1007105005194 signal peptidase I; Provisional; Region: PRK10861 1007105005195 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 1007105005196 Catalytic site [active] 1007105005197 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 1007105005198 GTP-binding protein LepA; Provisional; Region: PRK05433 1007105005199 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1007105005200 G1 box; other site 1007105005201 putative GEF interaction site [polypeptide binding]; other site 1007105005202 GTP/Mg2+ binding site [chemical binding]; other site 1007105005203 Switch I region; other site 1007105005204 G2 box; other site 1007105005205 G3 box; other site 1007105005206 Switch II region; other site 1007105005207 G4 box; other site 1007105005208 G5 box; other site 1007105005209 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 1007105005210 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 1007105005211 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1007105005212 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1007105005213 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1007105005214 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 1007105005215 protein binding site [polypeptide binding]; other site 1007105005216 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 1007105005217 protein binding site [polypeptide binding]; other site 1007105005218 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1007105005219 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1007105005220 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1007105005221 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1007105005222 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105005223 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 1007105005224 DNA binding residues [nucleotide binding] 1007105005225 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1007105005226 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 1007105005227 dimer interface [polypeptide binding]; other site 1007105005228 active site 1007105005229 acyl carrier protein; Provisional; Region: acpP; PRK00982 1007105005230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105005231 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1007105005232 NAD(P) binding site [chemical binding]; other site 1007105005233 active site 1007105005234 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1007105005235 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1007105005236 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1007105005237 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 1007105005238 dimer interface [polypeptide binding]; other site 1007105005239 active site 1007105005240 CoA binding pocket [chemical binding]; other site 1007105005241 putative phosphate acyltransferase; Provisional; Region: PRK05331 1007105005242 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1007105005243 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1007105005244 Maf-like protein; Region: Maf; pfam02545 1007105005245 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 1007105005246 active site 1007105005247 dimer interface [polypeptide binding]; other site 1007105005248 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1007105005249 putative SAM binding site [chemical binding]; other site 1007105005250 homodimer interface [polypeptide binding]; other site 1007105005251 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1007105005252 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 1007105005253 amidase catalytic site [active] 1007105005254 Zn binding residues [ion binding]; other site 1007105005255 substrate binding site [chemical binding]; other site 1007105005256 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1007105005257 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1007105005258 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1007105005259 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 1007105005260 Moco binding site; other site 1007105005261 metal coordination site [ion binding]; other site 1007105005262 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1007105005263 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 1007105005264 motif II; other site 1007105005265 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1007105005266 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 1007105005267 RNA binding surface [nucleotide binding]; other site 1007105005268 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1007105005269 active site 1007105005270 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1007105005271 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 1007105005272 homodimer interface [polypeptide binding]; other site 1007105005273 oligonucleotide binding site [chemical binding]; other site 1007105005274 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1007105005275 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1007105005276 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 1007105005277 substrate binding site [chemical binding]; other site 1007105005278 active site 1007105005279 catalytic residues [active] 1007105005280 heterodimer interface [polypeptide binding]; other site 1007105005281 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1007105005282 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 1007105005283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105005284 catalytic residue [active] 1007105005285 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1007105005286 HD domain; Region: HD_4; pfam13328 1007105005287 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1007105005288 synthetase active site [active] 1007105005289 NTP binding site [chemical binding]; other site 1007105005290 metal binding site [ion binding]; metal-binding site 1007105005291 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 1007105005292 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1007105005293 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1007105005294 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105005295 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 1007105005296 homotrimer interaction site [polypeptide binding]; other site 1007105005297 putative active site [active] 1007105005298 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1007105005299 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1007105005300 active site 1007105005301 Ferredoxin [Energy production and conversion]; Region: COG1146 1007105005302 4Fe-4S binding domain; Region: Fer4; cl02805 1007105005303 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1007105005304 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1007105005305 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1007105005306 ferredoxin; Provisional; Region: PRK08764 1007105005307 Putative Fe-S cluster; Region: FeS; cl17515 1007105005308 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1007105005309 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1007105005310 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1007105005311 minor groove reading motif; other site 1007105005312 helix-hairpin-helix signature motif; other site 1007105005313 substrate binding pocket [chemical binding]; other site 1007105005314 active site 1007105005315 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1007105005316 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105005317 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105005318 Walker A/P-loop; other site 1007105005319 ATP binding site [chemical binding]; other site 1007105005320 Q-loop/lid; other site 1007105005321 ABC transporter signature motif; other site 1007105005322 Walker B; other site 1007105005323 D-loop; other site 1007105005324 H-loop/switch region; other site 1007105005325 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105005326 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105005327 Walker A/P-loop; other site 1007105005328 ATP binding site [chemical binding]; other site 1007105005329 Q-loop/lid; other site 1007105005330 ABC transporter signature motif; other site 1007105005331 Walker B; other site 1007105005332 D-loop; other site 1007105005333 H-loop/switch region; other site 1007105005334 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105005335 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105005336 putative ligand binding site [chemical binding]; other site 1007105005337 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105005338 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105005339 TM-ABC transporter signature motif; other site 1007105005340 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105005341 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105005342 TM-ABC transporter signature motif; other site 1007105005343 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105005344 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105005345 Walker A/P-loop; other site 1007105005346 ATP binding site [chemical binding]; other site 1007105005347 Q-loop/lid; other site 1007105005348 ABC transporter signature motif; other site 1007105005349 Walker B; other site 1007105005350 D-loop; other site 1007105005351 H-loop/switch region; other site 1007105005352 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105005353 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105005354 TM-ABC transporter signature motif; other site 1007105005355 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105005356 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105005357 Walker A/P-loop; other site 1007105005358 ATP binding site [chemical binding]; other site 1007105005359 Q-loop/lid; other site 1007105005360 ABC transporter signature motif; other site 1007105005361 Walker B; other site 1007105005362 D-loop; other site 1007105005363 H-loop/switch region; other site 1007105005364 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105005365 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105005366 TM-ABC transporter signature motif; other site 1007105005367 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105005368 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1007105005369 putative ligand binding site [chemical binding]; other site 1007105005370 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1007105005371 SelR domain; Region: SelR; pfam01641 1007105005372 intracellular septation protein A; Reviewed; Region: PRK00259 1007105005373 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1007105005374 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 1007105005375 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1007105005376 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1007105005377 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 1007105005378 nucleotide binding pocket [chemical binding]; other site 1007105005379 K-X-D-G motif; other site 1007105005380 catalytic site [active] 1007105005381 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1007105005382 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1007105005383 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 1007105005384 Dimer interface [polypeptide binding]; other site 1007105005385 BRCT sequence motif; other site 1007105005386 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1007105005387 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1007105005388 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1007105005389 Walker A/P-loop; other site 1007105005390 ATP binding site [chemical binding]; other site 1007105005391 Q-loop/lid; other site 1007105005392 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1007105005393 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1007105005394 ABC transporter signature motif; other site 1007105005395 Walker B; other site 1007105005396 D-loop; other site 1007105005397 H-loop/switch region; other site 1007105005398 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1007105005399 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 1007105005400 putative substrate translocation pore; other site 1007105005401 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1007105005402 Fe-S cluster binding site [ion binding]; other site 1007105005403 active site 1007105005404 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1007105005405 Glycoprotease family; Region: Peptidase_M22; pfam00814 1007105005406 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1007105005407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105005408 Coenzyme A binding pocket [chemical binding]; other site 1007105005409 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105005410 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 1007105005411 active site 1007105005412 phosphorylation site [posttranslational modification] 1007105005413 intermolecular recognition site; other site 1007105005414 dimerization interface [polypeptide binding]; other site 1007105005415 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 1007105005416 DNA binding site [nucleotide binding] 1007105005417 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1007105005418 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 1007105005419 dimer interface [polypeptide binding]; other site 1007105005420 phosphorylation site [posttranslational modification] 1007105005421 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 1007105005422 ATP binding site [chemical binding]; other site 1007105005423 Mg2+ binding site [ion binding]; other site 1007105005424 G-X-G motif; other site 1007105005425 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1007105005426 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 1007105005427 dimer interface [polypeptide binding]; other site 1007105005428 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1007105005429 catalytic triad [active] 1007105005430 peroxidatic and resolving cysteines [active] 1007105005431 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 1007105005432 homotrimer interaction site [polypeptide binding]; other site 1007105005433 zinc binding site [ion binding]; other site 1007105005434 CDP-binding sites; other site 1007105005435 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1007105005436 substrate binding site; other site 1007105005437 dimer interface; other site 1007105005438 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1007105005439 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1007105005440 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 1007105005441 ATP binding site [chemical binding]; other site 1007105005442 putative Mg++ binding site [ion binding]; other site 1007105005443 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 1007105005444 nucleotide binding region [chemical binding]; other site 1007105005445 ATP-binding site [chemical binding]; other site 1007105005446 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1007105005447 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 1007105005448 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1007105005449 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 1007105005450 motif II; other site 1007105005451 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1007105005452 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1007105005453 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1007105005454 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1007105005455 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105005456 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1007105005457 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105005458 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1007105005459 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1007105005460 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1007105005461 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 1007105005462 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1007105005463 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1007105005464 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1007105005465 4Fe-4S binding domain; Region: Fer4; cl02805 1007105005466 4Fe-4S binding domain; Region: Fer4; cl02805 1007105005467 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1007105005468 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1007105005469 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1007105005470 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 1007105005471 catalytic loop [active] 1007105005472 iron binding site [ion binding]; other site 1007105005473 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1007105005474 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1007105005475 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 1007105005476 molybdopterin cofactor binding site; other site 1007105005477 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1007105005478 SLBB domain; Region: SLBB; pfam10531 1007105005479 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1007105005480 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1007105005481 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 1007105005482 putative dimer interface [polypeptide binding]; other site 1007105005483 [2Fe-2S] cluster binding site [ion binding]; other site 1007105005484 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1007105005485 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1007105005486 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1007105005487 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1007105005488 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1007105005489 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1007105005490 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1007105005491 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1007105005492 trimer interface [polypeptide binding]; other site 1007105005493 eyelet of channel; other site 1007105005494 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 1007105005495 conjugal transfer protein TrbM; Provisional; Region: PRK13893 1007105005496 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 1007105005497 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105005498 catalytic residue [active] 1007105005499 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1007105005500 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1007105005501 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1007105005502 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1007105005503 Type IV secretion system proteins; Region: T4SS; pfam07996 1007105005504 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1007105005505 VirB8 protein; Region: VirB8; pfam04335 1007105005506 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1007105005507 VirB7 interaction site; other site 1007105005508 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1007105005509 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1007105005510 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 1007105005511 Walker A motif; other site 1007105005512 hexamer interface [polypeptide binding]; other site 1007105005513 ATP binding site [chemical binding]; other site 1007105005514 Walker B motif; other site 1007105005515 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 1007105005516 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1007105005517 Walker A motif; other site 1007105005518 ATP binding site [chemical binding]; other site 1007105005519 Walker B motif; other site 1007105005520 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1007105005521 TrwC relaxase; Region: TrwC; pfam08751 1007105005522 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1007105005523 AAA domain; Region: AAA_30; pfam13604 1007105005524 Family description; Region: UvrD_C_2; pfam13538 1007105005525 ParB-like nuclease domain; Region: ParBc; pfam02195 1007105005526 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 1007105005527 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1007105005528 MPN+ (JAMM) motif; other site 1007105005529 Zinc-binding site [ion binding]; other site 1007105005530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1007105005531 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1007105005532 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 1007105005533 motif II; other site 1007105005534 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1007105005535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105005536 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1007105005537 putative dimerization interface [polypeptide binding]; other site 1007105005538 cystathionine beta-lyase; Provisional; Region: PRK07050 1007105005539 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 1007105005540 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105005541 catalytic residue [active] 1007105005542 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 1007105005543 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105005544 substrate binding pocket [chemical binding]; other site 1007105005545 membrane-bound complex binding site; other site 1007105005546 hinge residues; other site 1007105005547 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 1007105005548 putative PBP binding loops; other site 1007105005549 dimer interface [polypeptide binding]; other site 1007105005550 ABC-ATPase subunit interface; other site 1007105005551 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 1007105005552 dimer interface [polypeptide binding]; other site 1007105005553 conserved gate region; other site 1007105005554 putative PBP binding loops; other site 1007105005555 ABC-ATPase subunit interface; other site 1007105005556 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105005557 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105005558 Walker A/P-loop; other site 1007105005559 ATP binding site [chemical binding]; other site 1007105005560 Q-loop/lid; other site 1007105005561 ABC transporter signature motif; other site 1007105005562 Walker B; other site 1007105005563 D-loop; other site 1007105005564 H-loop/switch region; other site 1007105005565 Protein of unknown function, DUF; Region: DUF411; cl01142 1007105005566 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105005567 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1007105005568 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1007105005569 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1007105005570 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1007105005571 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1007105005572 hypothetical protein; Provisional; Region: PRK11469 1007105005573 Domain of unknown function DUF; Region: DUF204; pfam02659 1007105005574 Domain of unknown function DUF; Region: DUF204; pfam02659 1007105005575 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1007105005576 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 1007105005577 metal-binding site [ion binding] 1007105005578 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1007105005579 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 1007105005580 active site 1007105005581 phosphorylation site [posttranslational modification] 1007105005582 intermolecular recognition site; other site 1007105005583 dimerization interface [polypeptide binding]; other site 1007105005584 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 1007105005585 DNA binding site [nucleotide binding] 1007105005586 sensor kinase CusS; Provisional; Region: PRK09835 1007105005587 HAMP domain; Region: HAMP; pfam00672 1007105005588 dimerization interface [polypeptide binding]; other site 1007105005589 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 1007105005590 dimer interface [polypeptide binding]; other site 1007105005591 phosphorylation site [posttranslational modification] 1007105005592 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 1007105005593 ATP binding site [chemical binding]; other site 1007105005594 Mg2+ binding site [ion binding]; other site 1007105005595 G-X-G motif; other site 1007105005596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1007105005597 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1007105005598 Homeodomain-like domain; Region: HTH_23; pfam13384 1007105005599 Winged helix-turn helix; Region: HTH_29; pfam13551 1007105005600 Homeodomain-like domain; Region: HTH_32; pfam13565 1007105005601 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1007105005602 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1007105005603 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 1007105005604 Cu(I) binding site [ion binding]; other site 1007105005605 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105005606 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105005607 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1007105005608 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 1007105005609 Low-spin heme binding site [chemical binding]; other site 1007105005610 D-pathway; other site 1007105005611 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1007105005612 Putative water exit pathway; other site 1007105005613 Binuclear center (active site) [active] 1007105005614 K-pathway; other site 1007105005615 Putative proton exit pathway; other site 1007105005616 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1007105005617 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1007105005618 putative active site [active] 1007105005619 catalytic triad [active] 1007105005620 putative dimer interface [polypeptide binding]; other site 1007105005621 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1007105005622 Heavy-metal-associated domain; Region: HMA; pfam00403 1007105005623 metal-binding site [ion binding] 1007105005624 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1007105005625 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1007105005626 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1007105005627 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105005628 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1007105005629 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1007105005630 Thioredoxin; Region: Thioredoxin_4; cl17273 1007105005631 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1007105005632 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1007105005633 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 1007105005634 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105005635 catalytic residues [active] 1007105005636 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1007105005637 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1007105005638 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 1007105005639 binding surface 1007105005640 TPR motif; other site 1007105005641 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1007105005642 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 1007105005643 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105005644 catalytic residues [active] 1007105005645 central insert; other site 1007105005646 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1007105005647 CcmE; Region: CcmE; pfam03100 1007105005648 Heme exporter protein D (CcmD); Region: CcmD; cl11475 1007105005649 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1007105005650 CcmB protein; Region: CcmB; pfam03379 1007105005651 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1007105005652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105005653 Walker A/P-loop; other site 1007105005654 ATP binding site [chemical binding]; other site 1007105005655 Q-loop/lid; other site 1007105005656 ABC transporter signature motif; other site 1007105005657 Walker B; other site 1007105005658 D-loop; other site 1007105005659 H-loop/switch region; other site 1007105005660 integrase; Provisional; Region: PRK09692 1007105005661 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 1007105005662 active site 1007105005663 Int/Topo IB signature motif; other site 1007105005664 Preprotein translocase SecG subunit; Region: SecG; cl09123 1007105005665 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 1007105005666 triosephosphate isomerase; Provisional; Region: PRK14565 1007105005667 dimer interface [polypeptide binding]; other site 1007105005668 substrate binding site [chemical binding]; other site 1007105005669 catalytic triad [active] 1007105005670 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1007105005671 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1007105005672 NAD(P) binding site [chemical binding]; other site 1007105005673 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1007105005674 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1007105005675 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 1007105005676 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 1007105005677 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1007105005678 Sulfatase; Region: Sulfatase; pfam00884 1007105005679 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1007105005680 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 1007105005681 motif II; other site 1007105005682 Oxygen tolerance; Region: BatD; pfam13584 1007105005683 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1007105005684 metal ion-dependent adhesion site (MIDAS); other site 1007105005685 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1007105005686 metal ion-dependent adhesion site (MIDAS); other site 1007105005687 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1007105005688 Protein of unknown function DUF58; Region: DUF58; pfam01882 1007105005689 MoxR-like ATPases [General function prediction only]; Region: COG0714 1007105005690 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 1007105005691 Walker A motif; other site 1007105005692 ATP binding site [chemical binding]; other site 1007105005693 Walker B motif; other site 1007105005694 arginine finger; other site 1007105005695 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1007105005696 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1007105005697 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1007105005698 H-NS histone family; Region: Histone_HNS; pfam00816 1007105005699 Helix-turn-helix domain; Region: HTH_18; pfam12833 1007105005700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105005701 Surface antigen; Region: Bac_surface_Ag; pfam01103 1007105005702 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1007105005703 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 1007105005704 Peptidase family M50; Region: Peptidase_M50; pfam02163 1007105005705 active site 1007105005706 putative substrate binding region [chemical binding]; other site 1007105005707 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105005708 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 1007105005709 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105005710 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105005711 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105005712 Outer membrane efflux protein; Region: OEP; pfam02321 1007105005713 Outer membrane efflux protein; Region: OEP; pfam02321 1007105005714 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 1007105005715 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005716 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005717 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005718 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005719 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005720 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005721 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005722 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005723 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005724 VCBS repeat; Region: VCBS_repeat; TIGR01965 1007105005725 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1007105005726 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1007105005727 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 1007105005728 amphipathic channel; other site 1007105005729 Asn-Pro-Ala signature motifs; other site 1007105005730 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 1007105005731 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1007105005732 TrkA-C domain; Region: TrkA_C; pfam02080 1007105005733 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1007105005734 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1007105005735 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1007105005736 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1007105005737 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1007105005738 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1007105005739 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1007105005740 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1007105005741 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 1007105005742 N-terminal plug; other site 1007105005743 ligand-binding site [chemical binding]; other site 1007105005744 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1007105005745 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 1007105005746 N-terminal plug; other site 1007105005747 ligand-binding site [chemical binding]; other site 1007105005748 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1007105005749 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1007105005750 RNase E interface [polypeptide binding]; other site 1007105005751 trimer interface [polypeptide binding]; other site 1007105005752 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1007105005753 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1007105005754 RNase E interface [polypeptide binding]; other site 1007105005755 trimer interface [polypeptide binding]; other site 1007105005756 active site 1007105005757 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 1007105005758 putative nucleic acid binding region [nucleotide binding]; other site 1007105005759 G-X-X-G motif; other site 1007105005760 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 1007105005761 RNA binding site [nucleotide binding]; other site 1007105005762 domain interface; other site 1007105005763 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 1007105005764 16S/18S rRNA binding site [nucleotide binding]; other site 1007105005765 S13e-L30e interaction site [polypeptide binding]; other site 1007105005766 25S rRNA binding site [nucleotide binding]; other site 1007105005767 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1007105005768 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1007105005769 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1007105005770 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1007105005771 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1007105005772 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1007105005773 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1007105005774 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1007105005775 putative valine binding site [chemical binding]; other site 1007105005776 dimer interface [polypeptide binding]; other site 1007105005777 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1007105005778 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1007105005779 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105005780 PYR/PP interface [polypeptide binding]; other site 1007105005781 dimer interface [polypeptide binding]; other site 1007105005782 TPP binding site [chemical binding]; other site 1007105005783 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105005784 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 1007105005785 TPP-binding site [chemical binding]; other site 1007105005786 dimer interface [polypeptide binding]; other site 1007105005787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105005788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105005789 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105005790 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105005791 Walker A/P-loop; other site 1007105005792 ATP binding site [chemical binding]; other site 1007105005793 Q-loop/lid; other site 1007105005794 ABC transporter signature motif; other site 1007105005795 Walker B; other site 1007105005796 D-loop; other site 1007105005797 H-loop/switch region; other site 1007105005798 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105005799 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105005800 Walker A/P-loop; other site 1007105005801 ATP binding site [chemical binding]; other site 1007105005802 Q-loop/lid; other site 1007105005803 ABC transporter signature motif; other site 1007105005804 Walker B; other site 1007105005805 D-loop; other site 1007105005806 H-loop/switch region; other site 1007105005807 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105005808 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105005809 TM-ABC transporter signature motif; other site 1007105005810 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105005811 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105005812 TM-ABC transporter signature motif; other site 1007105005813 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105005814 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1007105005815 putative ligand binding site [chemical binding]; other site 1007105005816 acyl-CoA synthetase; Validated; Region: PRK08162 1007105005817 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1007105005818 acyl-activating enzyme (AAE) consensus motif; other site 1007105005819 putative active site [active] 1007105005820 AMP binding site [chemical binding]; other site 1007105005821 putative CoA binding site [chemical binding]; other site 1007105005822 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1007105005823 Phosphotransferase enzyme family; Region: APH; pfam01636 1007105005824 putative active site [active] 1007105005825 putative substrate binding site [chemical binding]; other site 1007105005826 ATP binding site [chemical binding]; other site 1007105005827 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105005828 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105005829 active site 1007105005830 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1007105005831 classical (c) SDRs; Region: SDR_c; cd05233 1007105005832 NAD(P) binding site [chemical binding]; other site 1007105005833 active site 1007105005834 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1007105005835 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1007105005836 hypothetical protein; Validated; Region: PRK02101 1007105005837 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1007105005838 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1007105005839 NAD binding site [chemical binding]; other site 1007105005840 homotetramer interface [polypeptide binding]; other site 1007105005841 homodimer interface [polypeptide binding]; other site 1007105005842 substrate binding site [chemical binding]; other site 1007105005843 active site 1007105005844 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 1007105005845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105005846 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105005847 enterobactin receptor protein; Provisional; Region: PRK13483 1007105005848 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 1007105005849 N-terminal plug; other site 1007105005850 ligand-binding site [chemical binding]; other site 1007105005851 short chain dehydrogenase; Provisional; Region: PRK06125 1007105005852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105005853 NAD(P) binding site [chemical binding]; other site 1007105005854 active site 1007105005855 seryl-tRNA synthetase; Provisional; Region: PRK05431 1007105005856 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1007105005857 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 1007105005858 dimer interface [polypeptide binding]; other site 1007105005859 active site 1007105005860 motif 1; other site 1007105005861 motif 2; other site 1007105005862 motif 3; other site 1007105005863 recombination factor protein RarA; Reviewed; Region: PRK13342 1007105005864 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 1007105005865 Walker A motif; other site 1007105005866 ATP binding site [chemical binding]; other site 1007105005867 Walker B motif; other site 1007105005868 arginine finger; other site 1007105005869 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1007105005870 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1007105005871 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1007105005872 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1007105005873 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1007105005874 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1007105005875 thioredoxin reductase; Provisional; Region: PRK10262 1007105005876 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105005877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105005878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1007105005879 Smr domain; Region: Smr; pfam01713 1007105005880 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1007105005881 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 1007105005882 active site residue [active] 1007105005883 isocitrate dehydrogenase; Validated; Region: PRK07362 1007105005884 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1007105005885 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1007105005886 Cytochrome c; Region: Cytochrom_C; cl11414 1007105005887 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1007105005888 MoxR-like ATPases [General function prediction only]; Region: COG0714 1007105005889 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 1007105005890 Walker A motif; other site 1007105005891 ATP binding site [chemical binding]; other site 1007105005892 Walker B motif; other site 1007105005893 arginine finger; other site 1007105005894 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1007105005895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1007105005896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1007105005897 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1007105005898 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1007105005899 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1007105005900 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1007105005901 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1007105005902 chaperone protein DnaJ; Provisional; Region: PRK10767 1007105005903 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 1007105005904 HSP70 interaction site [polypeptide binding]; other site 1007105005905 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1007105005906 substrate binding site [polypeptide binding]; other site 1007105005907 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1007105005908 Zn binding sites [ion binding]; other site 1007105005909 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1007105005910 dimer interface [polypeptide binding]; other site 1007105005911 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1007105005912 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1007105005913 nucleotide binding site [chemical binding]; other site 1007105005914 NEF interaction site [polypeptide binding]; other site 1007105005915 SBD interface [polypeptide binding]; other site 1007105005916 GrpE; Region: GrpE; pfam01025 1007105005917 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 1007105005918 dimer interface [polypeptide binding]; other site 1007105005919 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1007105005920 ferrochelatase; Reviewed; Region: hemH; PRK00035 1007105005921 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 1007105005922 C-terminal domain interface [polypeptide binding]; other site 1007105005923 active site 1007105005924 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 1007105005925 active site 1007105005926 N-terminal domain interface [polypeptide binding]; other site 1007105005927 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1007105005928 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1007105005929 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1007105005930 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1007105005931 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1007105005932 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1007105005933 Walker A/P-loop; other site 1007105005934 ATP binding site [chemical binding]; other site 1007105005935 Q-loop/lid; other site 1007105005936 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1007105005937 ABC transporter signature motif; other site 1007105005938 Walker B; other site 1007105005939 D-loop; other site 1007105005940 H-loop/switch region; other site 1007105005941 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1007105005942 metal binding site 2 [ion binding]; metal-binding site 1007105005943 putative DNA binding helix; other site 1007105005944 metal binding site 1 [ion binding]; metal-binding site 1007105005945 dimer interface [polypeptide binding]; other site 1007105005946 structural Zn2+ binding site [ion binding]; other site 1007105005947 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1007105005948 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1007105005949 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1007105005950 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1007105005951 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1007105005952 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1007105005953 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105005954 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1007105005955 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105005956 EamA-like transporter family; Region: EamA; pfam00892 1007105005957 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1007105005958 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1007105005959 putative active site [active] 1007105005960 metal binding site [ion binding]; metal-binding site 1007105005961 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1007105005962 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1007105005963 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105005964 hypothetical protein; Provisional; Region: PRK06208 1007105005965 intersubunit interface [polypeptide binding]; other site 1007105005966 active site 1007105005967 Zn2+ binding site [ion binding]; other site 1007105005968 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1007105005969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105005970 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 1007105005971 dimerization interface [polypeptide binding]; other site 1007105005972 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1007105005973 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1007105005974 Walker A/P-loop; other site 1007105005975 ATP binding site [chemical binding]; other site 1007105005976 Q-loop/lid; other site 1007105005977 ABC transporter signature motif; other site 1007105005978 Walker B; other site 1007105005979 D-loop; other site 1007105005980 H-loop/switch region; other site 1007105005981 TOBE domain; Region: TOBE_2; pfam08402 1007105005982 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1007105005983 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1007105005984 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1007105005985 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 1007105005986 dimer interface [polypeptide binding]; other site 1007105005987 conserved gate region; other site 1007105005988 putative PBP binding loops; other site 1007105005989 ABC-ATPase subunit interface; other site 1007105005990 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1007105005991 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 1007105005992 dimer interface [polypeptide binding]; other site 1007105005993 conserved gate region; other site 1007105005994 putative PBP binding loops; other site 1007105005995 ABC-ATPase subunit interface; other site 1007105005996 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105005997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105005998 DNA-binding site [nucleotide binding]; DNA binding site 1007105005999 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105006000 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1007105006001 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1007105006002 putative NAD(P) binding site [chemical binding]; other site 1007105006003 active site 1007105006004 putative substrate binding site [chemical binding]; other site 1007105006005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1007105006006 putative aldolase; Validated; Region: PRK08130 1007105006007 intersubunit interface [polypeptide binding]; other site 1007105006008 active site 1007105006009 Zn2+ binding site [ion binding]; other site 1007105006010 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1007105006011 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105006012 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105006013 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1007105006014 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105006015 Domain of unknown function (DUF336); Region: DUF336; cl01249 1007105006016 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 1007105006017 nucleoside/Zn binding site; other site 1007105006018 dimer interface [polypeptide binding]; other site 1007105006019 catalytic motif [active] 1007105006020 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 1007105006021 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105006022 catalytic residue [active] 1007105006023 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1007105006024 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1007105006025 conserved cys residue [active] 1007105006026 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1007105006027 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105006028 Walker A/P-loop; other site 1007105006029 ATP binding site [chemical binding]; other site 1007105006030 Q-loop/lid; other site 1007105006031 ABC transporter signature motif; other site 1007105006032 Walker B; other site 1007105006033 D-loop; other site 1007105006034 H-loop/switch region; other site 1007105006035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105006036 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105006037 Walker A/P-loop; other site 1007105006038 ATP binding site [chemical binding]; other site 1007105006039 Q-loop/lid; other site 1007105006040 ABC transporter signature motif; other site 1007105006041 Walker B; other site 1007105006042 D-loop; other site 1007105006043 H-loop/switch region; other site 1007105006044 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1007105006045 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 1007105006046 dimer interface [polypeptide binding]; other site 1007105006047 conserved gate region; other site 1007105006048 putative PBP binding loops; other site 1007105006049 ABC-ATPase subunit interface; other site 1007105006050 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1007105006051 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 1007105006052 dimer interface [polypeptide binding]; other site 1007105006053 conserved gate region; other site 1007105006054 putative PBP binding loops; other site 1007105006055 ABC-ATPase subunit interface; other site 1007105006056 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1007105006057 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 1007105006058 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1007105006059 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1007105006060 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1007105006061 isochorismate synthase DhbC; Validated; Region: PRK06923 1007105006062 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1007105006063 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006064 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 1007105006065 RNA binding surface [nucleotide binding]; other site 1007105006066 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1007105006067 short chain dehydrogenase; Provisional; Region: PRK12829 1007105006068 classical (c) SDRs; Region: SDR_c; cd05233 1007105006069 NAD(P) binding site [chemical binding]; other site 1007105006070 active site 1007105006071 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1007105006072 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1007105006073 putative active site [active] 1007105006074 catalytic site [active] 1007105006075 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1007105006076 putative active site [active] 1007105006077 catalytic site [active] 1007105006078 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 1007105006079 dimer interface [polypeptide binding]; other site 1007105006080 conserved gate region; other site 1007105006081 ABC-ATPase subunit interface; other site 1007105006082 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1007105006083 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 1007105006084 nudix motif; other site 1007105006085 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1007105006086 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1007105006087 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1007105006088 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1007105006089 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1007105006090 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 1007105006091 quinone interaction residues [chemical binding]; other site 1007105006092 active site 1007105006093 catalytic residues [active] 1007105006094 FMN binding site [chemical binding]; other site 1007105006095 substrate binding site [chemical binding]; other site 1007105006096 Phasin protein; Region: Phasin_2; pfam09361 1007105006097 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006098 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105006099 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105006100 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105006101 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1007105006102 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 1007105006103 putative MPT binding site; other site 1007105006104 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1007105006105 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105006106 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1007105006107 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 1007105006108 ATP binding site [chemical binding]; other site 1007105006109 Mg++ binding site [ion binding]; other site 1007105006110 motif III; other site 1007105006111 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 1007105006112 nucleotide binding region [chemical binding]; other site 1007105006113 ATP-binding site [chemical binding]; other site 1007105006114 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1007105006115 AzlC protein; Region: AzlC; pfam03591 1007105006116 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1007105006117 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 1007105006118 homodimer interface [polypeptide binding]; other site 1007105006119 substrate-cofactor binding pocket; other site 1007105006120 catalytic residue [active] 1007105006121 Zinc-finger domain; Region: zf-CHCC; cl01821 1007105006122 SnoaL-like domain; Region: SnoaL_3; pfam13474 1007105006123 SnoaL-like domain; Region: SnoaL_2; pfam12680 1007105006124 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1007105006125 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1007105006126 Peptidase family M48; Region: Peptidase_M48; pfam01435 1007105006127 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1007105006128 hypothetical protein; Provisional; Region: PRK06996 1007105006129 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1007105006130 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1007105006131 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 1007105006132 FMN binding site [chemical binding]; other site 1007105006133 active site 1007105006134 catalytic residues [active] 1007105006135 substrate binding site [chemical binding]; other site 1007105006136 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1007105006137 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1007105006138 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 1007105006139 purine monophosphate binding site [chemical binding]; other site 1007105006140 dimer interface [polypeptide binding]; other site 1007105006141 putative catalytic residues [active] 1007105006142 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1007105006143 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1007105006144 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 1007105006145 active site 1007105006146 putative DNA-binding cleft [nucleotide binding]; other site 1007105006147 dimer interface [polypeptide binding]; other site 1007105006148 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1007105006149 RuvA N terminal domain; Region: RuvA_N; pfam01330 1007105006150 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1007105006151 serine racemase; Region: PLN02970 1007105006152 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1007105006153 tetramer interface [polypeptide binding]; other site 1007105006154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006155 catalytic residue [active] 1007105006156 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1007105006157 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 1007105006158 Walker A motif; other site 1007105006159 ATP binding site [chemical binding]; other site 1007105006160 Walker B motif; other site 1007105006161 arginine finger; other site 1007105006162 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1007105006163 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1007105006164 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 1007105006165 ATP binding site [chemical binding]; other site 1007105006166 putative Mg++ binding site [ion binding]; other site 1007105006167 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 1007105006168 nucleotide binding region [chemical binding]; other site 1007105006169 ATP-binding site [chemical binding]; other site 1007105006170 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1007105006171 HRDC domain; Region: HRDC; pfam00570 1007105006172 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1007105006173 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 1007105006174 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1007105006175 Cl- selectivity filter; other site 1007105006176 Cl- binding residues [ion binding]; other site 1007105006177 pore gating glutamate residue; other site 1007105006178 dimer interface [polypeptide binding]; other site 1007105006179 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1007105006180 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1007105006181 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 1007105006182 active site 1007105006183 phosphorylation site [posttranslational modification] 1007105006184 intermolecular recognition site; other site 1007105006185 dimerization interface [polypeptide binding]; other site 1007105006186 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 1007105006187 DNA binding site [nucleotide binding] 1007105006188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105006189 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 1007105006190 dimerization interface [polypeptide binding]; other site 1007105006191 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1007105006192 dimer interface [polypeptide binding]; other site 1007105006193 phosphorylation site [posttranslational modification] 1007105006194 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 1007105006195 ATP binding site [chemical binding]; other site 1007105006196 Mg2+ binding site [ion binding]; other site 1007105006197 G-X-G motif; other site 1007105006198 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1007105006199 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1007105006200 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1007105006201 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1007105006202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1007105006203 active site 1007105006204 HIGH motif; other site 1007105006205 nucleotide binding site [chemical binding]; other site 1007105006206 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1007105006207 KMSKS motif; other site 1007105006208 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1007105006209 septum formation inhibitor; Provisional; Region: minC; PRK00030 1007105006210 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1007105006211 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1007105006212 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1007105006213 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 1007105006214 Switch I; other site 1007105006215 Switch II; other site 1007105006216 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1007105006217 Isochorismatase family; Region: Isochorismatase; pfam00857 1007105006218 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 1007105006219 catalytic triad [active] 1007105006220 conserved cis-peptide bond; other site 1007105006221 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1007105006222 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105006223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105006224 ABC transporter; Region: ABC_tran_2; pfam12848 1007105006225 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105006226 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1007105006227 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 1007105006228 active site 1007105006229 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1007105006230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105006231 Walker A/P-loop; other site 1007105006232 ATP binding site [chemical binding]; other site 1007105006233 Q-loop/lid; other site 1007105006234 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1007105006235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105006236 Walker A/P-loop; other site 1007105006237 ATP binding site [chemical binding]; other site 1007105006238 Q-loop/lid; other site 1007105006239 ABC transporter signature motif; other site 1007105006240 Walker B; other site 1007105006241 D-loop; other site 1007105006242 H-loop/switch region; other site 1007105006243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105006244 Walker A/P-loop; other site 1007105006245 ATP binding site [chemical binding]; other site 1007105006246 Q-loop/lid; other site 1007105006247 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1007105006248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105006249 Walker A/P-loop; other site 1007105006250 ATP binding site [chemical binding]; other site 1007105006251 Q-loop/lid; other site 1007105006252 ABC transporter signature motif; other site 1007105006253 Walker B; other site 1007105006254 D-loop; other site 1007105006255 H-loop/switch region; other site 1007105006256 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1007105006257 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1007105006258 hypothetical protein; Provisional; Region: PRK07546 1007105006259 substrate-cofactor binding pocket; other site 1007105006260 homodimer interface [polypeptide binding]; other site 1007105006261 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1007105006262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006263 catalytic residue [active] 1007105006264 hypothetical protein; Provisional; Region: PRK02237 1007105006265 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1007105006266 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1007105006267 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1007105006268 putative ATP binding site [chemical binding]; other site 1007105006269 putative substrate interface [chemical binding]; other site 1007105006270 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1007105006271 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 1007105006272 putative active site pocket [active] 1007105006273 dimerization interface [polypeptide binding]; other site 1007105006274 putative catalytic residue [active] 1007105006275 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1007105006276 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1007105006277 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1007105006278 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1007105006279 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1007105006280 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1007105006281 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1007105006282 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1007105006283 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1007105006284 putative active site [active] 1007105006285 putative substrate binding site [chemical binding]; other site 1007105006286 putative cosubstrate binding site; other site 1007105006287 catalytic site [active] 1007105006288 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1007105006289 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1007105006290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006291 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1007105006292 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 1007105006293 dimerization interface [polypeptide binding]; other site 1007105006294 thiamine pyrophosphate protein; Validated; Region: PRK08199 1007105006295 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105006296 PYR/PP interface [polypeptide binding]; other site 1007105006297 dimer interface [polypeptide binding]; other site 1007105006298 TPP binding site [chemical binding]; other site 1007105006299 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105006300 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 1007105006301 TPP-binding site [chemical binding]; other site 1007105006302 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1007105006303 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105006304 FAD binding site [chemical binding]; other site 1007105006305 substrate binding pocket [chemical binding]; other site 1007105006306 catalytic base [active] 1007105006307 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1007105006308 putative active site [active] 1007105006309 putative catalytic site [active] 1007105006310 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105006311 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1007105006312 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1007105006313 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1007105006314 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105006315 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1007105006316 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1007105006317 ATP binding site [chemical binding]; other site 1007105006318 active site 1007105006319 substrate binding site [chemical binding]; other site 1007105006320 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 1007105006321 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1007105006322 intersubunit interface [polypeptide binding]; other site 1007105006323 active site 1007105006324 zinc binding site [ion binding]; other site 1007105006325 Na+ binding site [ion binding]; other site 1007105006326 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 1007105006327 MPT binding site; other site 1007105006328 trimer interface [polypeptide binding]; other site 1007105006329 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1007105006330 Phosphoglycerate kinase; Region: PGK; pfam00162 1007105006331 substrate binding site [chemical binding]; other site 1007105006332 hinge regions; other site 1007105006333 ADP binding site [chemical binding]; other site 1007105006334 catalytic site [active] 1007105006335 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1007105006336 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1007105006337 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1007105006338 transketolase; Reviewed; Region: PRK12753 1007105006339 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 1007105006340 TPP-binding site [chemical binding]; other site 1007105006341 dimer interface [polypeptide binding]; other site 1007105006342 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 1007105006343 PYR/PP interface [polypeptide binding]; other site 1007105006344 dimer interface [polypeptide binding]; other site 1007105006345 TPP binding site [chemical binding]; other site 1007105006346 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105006347 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1007105006348 RNA methyltransferase, RsmE family; Region: TIGR00046 1007105006349 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1007105006350 putative RNAase interaction site [polypeptide binding]; other site 1007105006351 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1007105006352 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1007105006353 active site 1007105006354 nucleophile elbow; other site 1007105006355 malic enzyme; Reviewed; Region: PRK12862 1007105006356 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1007105006357 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1007105006358 putative NAD(P) binding site [chemical binding]; other site 1007105006359 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1007105006360 aminotransferase; Validated; Region: PRK07337 1007105006361 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 1007105006362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006363 homodimer interface [polypeptide binding]; other site 1007105006364 catalytic residue [active] 1007105006365 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1007105006366 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 1007105006367 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105006368 catalytic residue [active] 1007105006369 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1007105006370 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1007105006371 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105006372 active site 1007105006373 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1007105006374 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 1007105006375 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1007105006376 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1007105006377 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1007105006378 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1007105006379 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1007105006380 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1007105006381 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1007105006382 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1007105006383 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1007105006384 Protein export membrane protein; Region: SecD_SecF; pfam02355 1007105006385 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105006386 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1007105006387 sulfite oxidase; Provisional; Region: PLN00177 1007105006388 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1007105006389 Moco binding site; other site 1007105006390 metal coordination site [ion binding]; other site 1007105006391 dimerization interface [polypeptide binding]; other site 1007105006392 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1007105006393 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1007105006394 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 1007105006395 FeS/SAM binding site; other site 1007105006396 TRAM domain; Region: TRAM; pfam01938 1007105006397 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1007105006398 PhoH-like protein; Region: PhoH; pfam02562 1007105006399 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1007105006400 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1007105006401 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 1007105006402 Transporter associated domain; Region: CorC_HlyC; smart01091 1007105006403 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1007105006404 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1007105006405 putative active site [active] 1007105006406 catalytic triad [active] 1007105006407 putative dimer interface [polypeptide binding]; other site 1007105006408 hypothetical protein; Provisional; Region: PRK06194 1007105006409 classical (c) SDRs; Region: SDR_c; cd05233 1007105006410 NAD(P) binding site [chemical binding]; other site 1007105006411 active site 1007105006412 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1007105006413 putative FMN binding site [chemical binding]; other site 1007105006414 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1007105006415 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1007105006416 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1007105006417 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 1007105006418 N-terminal plug; other site 1007105006419 ligand-binding site [chemical binding]; other site 1007105006420 malic enzyme; Reviewed; Region: PRK12861 1007105006421 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1007105006422 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1007105006423 putative NAD(P) binding site [chemical binding]; other site 1007105006424 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1007105006425 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1007105006426 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006427 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 1007105006428 dimerization interface [polypeptide binding]; other site 1007105006429 biotin synthase; Region: bioB; TIGR00433 1007105006430 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 1007105006431 FeS/SAM binding site; other site 1007105006432 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1007105006433 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 1007105006434 putative MFS family transporter protein; Provisional; Region: PRK03633 1007105006435 putative substrate translocation pore; other site 1007105006436 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 1007105006437 catalytic triad [active] 1007105006438 dimer interface [polypeptide binding]; other site 1007105006439 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 1007105006440 trimer interface [polypeptide binding]; other site 1007105006441 dimer interface [polypeptide binding]; other site 1007105006442 putative active site [active] 1007105006443 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1007105006444 MoaE interaction surface [polypeptide binding]; other site 1007105006445 MoeB interaction surface [polypeptide binding]; other site 1007105006446 thiocarboxylated glycine; other site 1007105006447 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 1007105006448 MoaE homodimer interface [polypeptide binding]; other site 1007105006449 MoaD interaction [polypeptide binding]; other site 1007105006450 active site residues [active] 1007105006451 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 1007105006452 MPT binding site; other site 1007105006453 trimer interface [polypeptide binding]; other site 1007105006454 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1007105006455 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 1007105006456 dimer interface [polypeptide binding]; other site 1007105006457 putative functional site; other site 1007105006458 putative MPT binding site; other site 1007105006459 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1007105006460 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1007105006461 GTP binding site; other site 1007105006462 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1007105006463 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 1007105006464 FeS/SAM binding site; other site 1007105006465 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1007105006466 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1007105006467 PBP superfamily domain; Region: PBP_like; pfam12727 1007105006468 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1007105006469 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 1007105006470 putative dimer interface [polypeptide binding]; other site 1007105006471 [2Fe-2S] cluster binding site [ion binding]; other site 1007105006472 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 1007105006473 putative dimer interface [polypeptide binding]; other site 1007105006474 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1007105006475 SLBB domain; Region: SLBB; pfam10531 1007105006476 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1007105006477 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1007105006478 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 1007105006479 catalytic loop [active] 1007105006480 iron binding site [ion binding]; other site 1007105006481 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1007105006482 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 1007105006483 [4Fe-4S] binding site [ion binding]; other site 1007105006484 molybdopterin cofactor binding site; other site 1007105006485 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 1007105006486 molybdopterin cofactor binding site; other site 1007105006487 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1007105006488 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1007105006489 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1007105006490 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 1007105006491 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 1007105006492 Ligand Binding Site [chemical binding]; other site 1007105006493 Putative phosphatase (DUF442); Region: DUF442; cl17385 1007105006494 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1007105006495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105006496 Coenzyme A binding pocket [chemical binding]; other site 1007105006497 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1007105006498 heme-binding site [chemical binding]; other site 1007105006499 NnrS protein; Region: NnrS; pfam05940 1007105006500 Transcriptional regulator; Region: Rrf2; cl17282 1007105006501 Rrf2 family protein; Region: rrf2_super; TIGR00738 1007105006502 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1007105006503 MarR family; Region: MarR_2; pfam12802 1007105006504 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1007105006505 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1007105006506 ligand binding site [chemical binding]; other site 1007105006507 NAD binding site [chemical binding]; other site 1007105006508 tetramer interface [polypeptide binding]; other site 1007105006509 catalytic site [active] 1007105006510 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1007105006511 L-serine binding site [chemical binding]; other site 1007105006512 ACT domain interface; other site 1007105006513 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1007105006514 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1007105006515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105006516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006517 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 1007105006518 dimerization interface [polypeptide binding]; other site 1007105006519 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1007105006520 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 1007105006521 putative substrate translocation pore; other site 1007105006522 Predicted membrane protein [Function unknown]; Region: COG3671 1007105006523 GTP-binding protein YchF; Reviewed; Region: PRK09601 1007105006524 YchF GTPase; Region: YchF; cd01900 1007105006525 G1 box; other site 1007105006526 GTP/Mg2+ binding site [chemical binding]; other site 1007105006527 Switch I region; other site 1007105006528 G2 box; other site 1007105006529 Switch II region; other site 1007105006530 G3 box; other site 1007105006531 G4 box; other site 1007105006532 G5 box; other site 1007105006533 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 1007105006534 CAAX protease self-immunity; Region: Abi; pfam02517 1007105006535 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 1007105006536 putative active site [active] 1007105006537 catalytic residue [active] 1007105006538 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1007105006539 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1007105006540 5S rRNA interface [nucleotide binding]; other site 1007105006541 CTC domain interface [polypeptide binding]; other site 1007105006542 L16 interface [polypeptide binding]; other site 1007105006543 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1007105006544 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1007105006545 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105006546 active site 1007105006547 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1007105006548 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1007105006549 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1007105006550 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1007105006551 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1007105006552 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1007105006553 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1007105006554 DNA binding site [nucleotide binding] 1007105006555 putative catalytic residues [active] 1007105006556 turnover-facilitating residue; other site 1007105006557 intercalation triad [nucleotide binding]; other site 1007105006558 8OG recognition residue [nucleotide binding]; other site 1007105006559 putative reading head residues; other site 1007105006560 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1007105006561 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1007105006562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1007105006563 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1007105006564 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1007105006565 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1007105006566 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1007105006567 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1007105006568 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1007105006569 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105006570 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105006571 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105006572 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1007105006573 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 1007105006574 active site 1007105006575 substrate binding site [chemical binding]; other site 1007105006576 metal binding site [ion binding]; metal-binding site 1007105006577 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1007105006578 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1007105006579 putative ADP-binding pocket [chemical binding]; other site 1007105006580 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1007105006581 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105006582 putative ADP-binding pocket [chemical binding]; other site 1007105006583 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105006584 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1007105006585 putative ADP-binding pocket [chemical binding]; other site 1007105006586 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1007105006587 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 1007105006588 active site 1007105006589 dimer interface [polypeptide binding]; other site 1007105006590 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 1007105006591 Ligand Binding Site [chemical binding]; other site 1007105006592 Molecular Tunnel; other site 1007105006593 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1007105006594 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1007105006595 putative ADP-binding pocket [chemical binding]; other site 1007105006596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105006597 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1007105006598 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1007105006599 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1007105006600 NAD binding site [chemical binding]; other site 1007105006601 substrate binding site [chemical binding]; other site 1007105006602 homodimer interface [polypeptide binding]; other site 1007105006603 active site 1007105006604 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1007105006605 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1007105006606 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1007105006607 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 1007105006608 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1007105006609 Mg++ binding site [ion binding]; other site 1007105006610 putative catalytic motif [active] 1007105006611 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1007105006612 diiron binding motif [ion binding]; other site 1007105006613 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1007105006614 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 1007105006615 Cu(I) binding site [ion binding]; other site 1007105006616 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105006617 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105006618 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1007105006619 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 1007105006620 D-pathway; other site 1007105006621 Low-spin heme binding site [chemical binding]; other site 1007105006622 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1007105006623 Putative water exit pathway; other site 1007105006624 Binuclear center (active site) [active] 1007105006625 K-pathway; other site 1007105006626 Putative proton exit pathway; other site 1007105006627 OsmC-like protein; Region: OsmC; cl00767 1007105006628 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1007105006629 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 1007105006630 dimerization interface [polypeptide binding]; other site 1007105006631 active site 1007105006632 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1007105006633 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 1007105006634 folate binding site [chemical binding]; other site 1007105006635 NADP+ binding site [chemical binding]; other site 1007105006636 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 1007105006637 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105006638 DNA-binding site [nucleotide binding]; DNA binding site 1007105006639 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 1007105006640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006641 homodimer interface [polypeptide binding]; other site 1007105006642 catalytic residue [active] 1007105006643 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1007105006644 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 1007105006645 inhibitor-cofactor binding pocket; inhibition site 1007105006646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006647 catalytic residue [active] 1007105006648 glycine dehydrogenase; Provisional; Region: PRK05367 1007105006649 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 1007105006650 tetramer interface [polypeptide binding]; other site 1007105006651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006652 catalytic residue [active] 1007105006653 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 1007105006654 tetramer interface [polypeptide binding]; other site 1007105006655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105006656 catalytic residue [active] 1007105006657 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 1007105006658 lipoyl attachment site [posttranslational modification]; other site 1007105006659 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1007105006660 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1007105006661 Predicted flavoproteins [General function prediction only]; Region: COG2081 1007105006662 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1007105006663 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1007105006664 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 1007105006665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105006666 catalytic residue [active] 1007105006667 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1007105006668 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1007105006669 trimer interface [polypeptide binding]; other site 1007105006670 active site 1007105006671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1007105006672 Family of unknown function (DUF490); Region: DUF490; pfam04357 1007105006673 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1007105006674 Surface antigen; Region: Bac_surface_Ag; pfam01103 1007105006675 antiporter inner membrane protein; Provisional; Region: PRK11670 1007105006676 Domain of unknown function DUF59; Region: DUF59; cl00941 1007105006677 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 1007105006678 Walker A motif; other site 1007105006679 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1007105006680 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1007105006681 active site 1007105006682 HIGH motif; other site 1007105006683 KMSKS motif; other site 1007105006684 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1007105006685 tRNA binding surface [nucleotide binding]; other site 1007105006686 anticodon binding site; other site 1007105006687 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1007105006688 dimer interface [polypeptide binding]; other site 1007105006689 putative tRNA-binding site [nucleotide binding]; other site 1007105006690 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1007105006691 Cation efflux family; Region: Cation_efflux; pfam01545 1007105006692 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 1007105006693 putative substrate translocation pore; other site 1007105006694 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 1007105006695 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1007105006696 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105006697 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105006698 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1007105006699 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105006700 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105006701 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105006702 DctM-like transporters; Region: DctM; pfam06808 1007105006703 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105006704 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1007105006705 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105006706 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 1007105006707 sequence-specific DNA binding site [nucleotide binding]; other site 1007105006708 salt bridge; other site 1007105006709 HipA N-terminal domain; Region: Couple_hipA; cl11853 1007105006710 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1007105006711 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1007105006712 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1007105006713 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 1007105006714 S-adenosylmethionine binding site [chemical binding]; other site 1007105006715 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1007105006716 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1007105006717 thiS-thiF/thiG interaction site; other site 1007105006718 signal recognition particle protein; Provisional; Region: PRK10867 1007105006719 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1007105006720 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 1007105006721 P loop; other site 1007105006722 GTP binding site [chemical binding]; other site 1007105006723 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1007105006724 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1007105006725 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1007105006726 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 1007105006727 substrate binding site [chemical binding]; other site 1007105006728 amidase catalytic site [active] 1007105006729 Zn binding residues [ion binding]; other site 1007105006730 heat shock protein 90; Provisional; Region: PRK05218 1007105006731 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 1007105006732 ATP binding site [chemical binding]; other site 1007105006733 Mg2+ binding site [ion binding]; other site 1007105006734 G-X-G motif; other site 1007105006735 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1007105006736 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 1007105006737 Entericidin EcnA/B family; Region: Entericidin; cl02322 1007105006738 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105006739 DctM-like transporters; Region: DctM; pfam06808 1007105006740 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105006741 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105006742 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105006743 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1007105006744 active site 1007105006745 catalytic residues [active] 1007105006746 metal binding site [ion binding]; metal-binding site 1007105006747 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105006748 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105006749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105006750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006751 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 1007105006752 dimerization interface [polypeptide binding]; other site 1007105006753 integrase; Provisional; Region: int; PHA02601 1007105006754 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 1007105006755 active site 1007105006756 DNA binding site [nucleotide binding] 1007105006757 Int/Topo IB signature motif; other site 1007105006758 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 1007105006759 active site 1007105006760 NTP binding site [chemical binding]; other site 1007105006761 metal binding triad [ion binding]; metal-binding site 1007105006762 ThiF family; Region: ThiF; pfam00899 1007105006763 ATP binding site [chemical binding]; other site 1007105006764 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 1007105006765 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1007105006766 Type IV secretion system proteins; Region: T4SS; pfam07996 1007105006767 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1007105006768 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1007105006769 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1007105006770 Fic family protein [Function unknown]; Region: COG3177 1007105006771 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1007105006772 Fic/DOC family; Region: Fic; pfam02661 1007105006773 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 1007105006774 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1007105006775 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1007105006776 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1007105006777 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1007105006778 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1007105006779 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1007105006780 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1007105006781 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1007105006782 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1007105006783 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 1007105006784 ATP binding site [chemical binding]; other site 1007105006785 putative Mg++ binding site [ion binding]; other site 1007105006786 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1007105006787 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1007105006788 AAA ATPase domain; Region: AAA_15; pfam13175 1007105006789 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1007105006790 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1007105006791 putative active site [active] 1007105006792 putative metal-binding site [ion binding]; other site 1007105006793 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1007105006794 Part of AAA domain; Region: AAA_19; pfam13245 1007105006795 Family description; Region: UvrD_C_2; pfam13538 1007105006796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1007105006797 Transposase; Region: HTH_Tnp_1; pfam01527 1007105006798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105006799 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105006800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105006801 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105006802 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105006803 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105006804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105006805 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105006806 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105006807 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105006808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105006809 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105006810 Transposase; Region: HTH_Tnp_1; pfam01527 1007105006811 Sulfatase; Region: Sulfatase; cl17466 1007105006812 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1007105006813 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1007105006814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006815 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105006816 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1007105006817 tetramerization interface [polypeptide binding]; other site 1007105006818 NAD(P) binding site [chemical binding]; other site 1007105006819 catalytic residues [active] 1007105006820 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1007105006821 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105006822 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1007105006823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006824 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 1007105006825 dimerization interface [polypeptide binding]; other site 1007105006826 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 1007105006827 Fic/DOC family; Region: Fic; pfam02661 1007105006828 Fic/DOC family; Region: Fic; pfam02661 1007105006829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 1007105006830 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1007105006831 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 1007105006832 putative Mg++ binding site [ion binding]; other site 1007105006833 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 1007105006834 non-specific DNA binding site [nucleotide binding]; other site 1007105006835 salt bridge; other site 1007105006836 sequence-specific DNA binding site [nucleotide binding]; other site 1007105006837 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 1007105006838 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1007105006839 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1007105006840 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1007105006841 putative inner membrane protein; Provisional; Region: PRK11099 1007105006842 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 1007105006843 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1007105006844 active site residue [active] 1007105006845 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 1007105006846 active site residue [active] 1007105006847 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105006848 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105006849 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1007105006850 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1007105006851 active site 1007105006852 citrylCoA binding site [chemical binding]; other site 1007105006853 oxalacetate binding site [chemical binding]; other site 1007105006854 coenzyme A binding site [chemical binding]; other site 1007105006855 catalytic triad [active] 1007105006856 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1007105006857 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1007105006858 active site 1007105006859 dimer interface [polypeptide binding]; other site 1007105006860 metal binding site [ion binding]; metal-binding site 1007105006861 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006862 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1007105006863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006864 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 1007105006865 dimerization interface [polypeptide binding]; other site 1007105006866 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1007105006867 putative active site [active] 1007105006868 dimerization interface [polypeptide binding]; other site 1007105006869 putative tRNAtyr binding site [nucleotide binding]; other site 1007105006870 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1007105006871 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1007105006872 hypothetical protein; Provisional; Region: PRK01842 1007105006873 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1007105006874 Histidine kinase; Region: His_kinase; pfam06580 1007105006875 Response regulator receiver domain; Region: Response_reg; pfam00072 1007105006876 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 1007105006877 active site 1007105006878 phosphorylation site [posttranslational modification] 1007105006879 intermolecular recognition site; other site 1007105006880 dimerization interface [polypeptide binding]; other site 1007105006881 LytTr DNA-binding domain; Region: LytTR; smart00850 1007105006882 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105006883 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1007105006884 metal binding site [ion binding]; metal-binding site 1007105006885 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1007105006886 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1007105006887 CHRD domain; Region: CHRD; pfam07452 1007105006888 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; cl00470 1007105006889 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105006890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105006891 DNA-binding site [nucleotide binding]; DNA binding site 1007105006892 FCD domain; Region: FCD; pfam07729 1007105006893 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1007105006894 hypothetical protein; Validated; Region: PRK06201 1007105006895 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006896 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1007105006897 transmembrane helices; other site 1007105006898 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1007105006899 TrkA-C domain; Region: TrkA_C; pfam02080 1007105006900 TrkA-C domain; Region: TrkA_C; pfam02080 1007105006901 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1007105006902 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006903 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105006904 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105006905 active site pocket [active] 1007105006906 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105006907 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105006908 DNA-binding site [nucleotide binding]; DNA binding site 1007105006909 FCD domain; Region: FCD; pfam07729 1007105006910 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105006911 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105006912 enoyl-CoA hydratase; Provisional; Region: PRK08290 1007105006913 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 1007105006914 substrate binding site [chemical binding]; other site 1007105006915 oxyanion hole (OAH) forming residues; other site 1007105006916 trimer interface [polypeptide binding]; other site 1007105006917 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1007105006918 CoA binding domain; Region: CoA_binding_2; pfam13380 1007105006919 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1007105006920 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1007105006921 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105006922 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105006923 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105006924 active site 1007105006925 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1007105006926 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105006927 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105006928 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1007105006929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105006930 DNA-binding site [nucleotide binding]; DNA binding site 1007105006931 FCD domain; Region: FCD; pfam07729 1007105006932 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 1007105006933 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105006934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105006935 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105006936 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105006937 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 1007105006938 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105006939 putative substrate translocation pore; other site 1007105006940 Cupin; Region: Cupin_6; pfam12852 1007105006941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105006942 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1007105006943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105006944 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 1007105006945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105006946 putative substrate translocation pore; other site 1007105006947 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1007105006948 classical (c) SDRs; Region: SDR_c; cd05233 1007105006949 NAD(P) binding site [chemical binding]; other site 1007105006950 active site 1007105006951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105006952 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1007105006953 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1007105006954 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1007105006955 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1007105006956 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1007105006957 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1007105006958 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1007105006959 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105006960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105006961 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1007105006962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105006963 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 1007105006964 dimerization interface [polypeptide binding]; other site 1007105006965 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1007105006966 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1007105006967 active site 1007105006968 FMN binding site [chemical binding]; other site 1007105006969 substrate binding site [chemical binding]; other site 1007105006970 homotetramer interface [polypeptide binding]; other site 1007105006971 catalytic residue [active] 1007105006972 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1007105006973 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105006974 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1007105006975 EF-hand domain pair; Region: EF_hand_5; pfam13499 1007105006976 Ca2+ binding site [ion binding]; other site 1007105006977 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 1007105006978 putative hydrophobic ligand binding site [chemical binding]; other site 1007105006979 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1007105006980 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1007105006981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105006982 AzlC protein; Region: AzlC; pfam03591 1007105006983 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1007105006984 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105006985 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105006986 DNA-binding site [nucleotide binding]; DNA binding site 1007105006987 FCD domain; Region: FCD; pfam07729 1007105006988 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 1007105006989 Ectoine synthase; Region: Ectoine_synth; pfam06339 1007105006990 amidase; Provisional; Region: PRK07056 1007105006991 Amidase; Region: Amidase; cl11426 1007105006992 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105006993 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 1007105006994 dimer interface [polypeptide binding]; other site 1007105006995 conserved gate region; other site 1007105006996 putative PBP binding loops; other site 1007105006997 ABC-ATPase subunit interface; other site 1007105006998 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105006999 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105007000 Walker A/P-loop; other site 1007105007001 ATP binding site [chemical binding]; other site 1007105007002 Q-loop/lid; other site 1007105007003 ABC transporter signature motif; other site 1007105007004 Walker B; other site 1007105007005 D-loop; other site 1007105007006 H-loop/switch region; other site 1007105007007 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105007008 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 1007105007009 substrate binding pocket [chemical binding]; other site 1007105007010 membrane-bound complex binding site; other site 1007105007011 hinge residues; other site 1007105007012 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1007105007013 transmembrane helices; other site 1007105007014 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1007105007015 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1007105007016 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1007105007017 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 1007105007018 hypothetical protein; Provisional; Region: PRK14812 1007105007019 substrate binding site [chemical binding]; other site 1007105007020 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1007105007021 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1007105007022 substrate binding site [chemical binding]; other site 1007105007023 ligand binding site [chemical binding]; other site 1007105007024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007025 transcriptional activator TtdR; Provisional; Region: PRK09801 1007105007026 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1007105007027 putative effector binding pocket; other site 1007105007028 putative dimerization interface [polypeptide binding]; other site 1007105007029 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1007105007030 putative substrate translocation pore; other site 1007105007031 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007032 tricarballylate utilization protein B; Provisional; Region: PRK15033 1007105007033 tricarballylate dehydrogenase; Validated; Region: PRK08274 1007105007034 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105007035 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1007105007036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007037 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1007105007038 putative dimerization interface [polypeptide binding]; other site 1007105007039 LexA regulated protein; Provisional; Region: PRK11675 1007105007040 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1007105007041 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1007105007042 dimerization interface [polypeptide binding]; other site 1007105007043 ligand binding site [chemical binding]; other site 1007105007044 NADP binding site [chemical binding]; other site 1007105007045 catalytic site [active] 1007105007046 Sporulation related domain; Region: SPOR; pfam05036 1007105007047 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1007105007048 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1007105007049 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1007105007050 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1007105007051 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1007105007052 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1007105007053 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105007054 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1007105007055 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105007056 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1007105007057 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1007105007058 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105007059 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1007105007060 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1007105007061 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1007105007062 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1007105007063 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1007105007064 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 1007105007065 Walker A motif; other site 1007105007066 ATP binding site [chemical binding]; other site 1007105007067 Walker B motif; other site 1007105007068 arginine finger; other site 1007105007069 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 1007105007070 Walker A motif; other site 1007105007071 ATP binding site [chemical binding]; other site 1007105007072 Walker B motif; other site 1007105007073 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1007105007074 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1007105007075 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1007105007076 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1007105007077 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1007105007078 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1007105007079 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1007105007080 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1007105007081 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1007105007082 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1007105007083 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1007105007084 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1007105007085 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1007105007086 AAA ATPase domain; Region: AAA_16; pfam13191 1007105007087 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1007105007088 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 1007105007089 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105007090 catalytic residue [active] 1007105007091 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1007105007092 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1007105007093 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1007105007094 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1007105007095 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1007105007096 active site 1007105007097 dimer interface [polypeptide binding]; other site 1007105007098 effector binding site; other site 1007105007099 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1007105007100 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 1007105007101 E-class dimer interface [polypeptide binding]; other site 1007105007102 P-class dimer interface [polypeptide binding]; other site 1007105007103 active site 1007105007104 Cu2+ binding site [ion binding]; other site 1007105007105 Zn2+ binding site [ion binding]; other site 1007105007106 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 1007105007107 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 1007105007108 molybdopterin cofactor binding site; other site 1007105007109 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 1007105007110 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1007105007111 molybdopterin cofactor binding site; other site 1007105007112 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1007105007113 4Fe-4S binding domain; Region: Fer4; cl02805 1007105007114 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1007105007115 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 1007105007116 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1007105007117 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1007105007118 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1007105007119 selenocysteine synthase; Provisional; Region: PRK04311 1007105007120 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1007105007121 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1007105007122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105007123 catalytic residue [active] 1007105007124 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1007105007125 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1007105007126 G1 box; other site 1007105007127 putative GEF interaction site [polypeptide binding]; other site 1007105007128 GTP/Mg2+ binding site [chemical binding]; other site 1007105007129 Switch I region; other site 1007105007130 G2 box; other site 1007105007131 G3 box; other site 1007105007132 Switch II region; other site 1007105007133 G4 box; other site 1007105007134 G5 box; other site 1007105007135 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1007105007136 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1007105007137 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1007105007138 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1007105007139 selenophosphate synthetase; Provisional; Region: PRK00943 1007105007140 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1007105007141 dimerization interface [polypeptide binding]; other site 1007105007142 putative ATP binding site [chemical binding]; other site 1007105007143 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1007105007144 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105007145 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105007146 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105007147 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1007105007148 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1007105007149 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1007105007150 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1007105007151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105007152 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1007105007153 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 1007105007154 DNA binding site [nucleotide binding] 1007105007155 active site 1007105007156 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1007105007157 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1007105007158 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 1007105007159 putative substrate translocation pore; other site 1007105007160 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1007105007161 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1007105007162 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1007105007163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105007164 catalytic residue [active] 1007105007165 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1007105007166 ligand binding site [chemical binding]; other site 1007105007167 active site 1007105007168 UGI interface [polypeptide binding]; other site 1007105007169 catalytic site [active] 1007105007170 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1007105007171 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1007105007172 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 1007105007173 non-specific DNA binding site [nucleotide binding]; other site 1007105007174 salt bridge; other site 1007105007175 sequence-specific DNA binding site [nucleotide binding]; other site 1007105007176 Cupin domain; Region: Cupin_2; pfam07883 1007105007177 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1007105007178 intersubunit interface [polypeptide binding]; other site 1007105007179 active site 1007105007180 Zn2+ binding site [ion binding]; other site 1007105007181 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1007105007182 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105007183 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1007105007184 N-terminal domain interface [polypeptide binding]; other site 1007105007185 dimer interface [polypeptide binding]; other site 1007105007186 substrate binding pocket (H-site) [chemical binding]; other site 1007105007187 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007188 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1007105007189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007190 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 1007105007191 dimerization interface [polypeptide binding]; other site 1007105007192 LysE type translocator; Region: LysE; cl00565 1007105007193 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105007194 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 1007105007195 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1007105007196 homodimer interface [polypeptide binding]; other site 1007105007197 NAD binding pocket [chemical binding]; other site 1007105007198 ATP binding pocket [chemical binding]; other site 1007105007199 Mg binding site [ion binding]; other site 1007105007200 active-site loop [active] 1007105007201 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105007202 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 1007105007203 putative substrate translocation pore; other site 1007105007204 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1007105007205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1007105007206 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1007105007207 classical (c) SDRs; Region: SDR_c; cd05233 1007105007208 NAD(P) binding site [chemical binding]; other site 1007105007209 active site 1007105007210 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 1007105007211 iron-sulfur cluster [ion binding]; other site 1007105007212 [2Fe-2S] cluster binding site [ion binding]; other site 1007105007213 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105007215 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105007216 Walker A/P-loop; other site 1007105007217 ATP binding site [chemical binding]; other site 1007105007218 Q-loop/lid; other site 1007105007219 ABC transporter signature motif; other site 1007105007220 Walker B; other site 1007105007221 D-loop; other site 1007105007222 H-loop/switch region; other site 1007105007223 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 1007105007224 dimer interface [polypeptide binding]; other site 1007105007225 conserved gate region; other site 1007105007226 putative PBP binding loops; other site 1007105007227 ABC-ATPase subunit interface; other site 1007105007228 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1007105007229 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 1007105007230 conserved gate region; other site 1007105007231 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 1007105007232 putative PBP binding loops; other site 1007105007233 dimer interface [polypeptide binding]; other site 1007105007234 ABC-ATPase subunit interface; other site 1007105007235 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1007105007236 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 1007105007237 substrate binding pocket [chemical binding]; other site 1007105007238 membrane-bound complex binding site; other site 1007105007239 hinge residues; other site 1007105007240 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1007105007241 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1007105007242 Walker A/P-loop; other site 1007105007243 ATP binding site [chemical binding]; other site 1007105007244 Q-loop/lid; other site 1007105007245 ABC transporter signature motif; other site 1007105007246 Walker B; other site 1007105007247 D-loop; other site 1007105007248 H-loop/switch region; other site 1007105007249 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1007105007250 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1007105007251 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1007105007252 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1007105007253 minor groove reading motif; other site 1007105007254 helix-hairpin-helix signature motif; other site 1007105007255 substrate binding pocket [chemical binding]; other site 1007105007256 active site 1007105007257 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 1007105007258 DNA binding and oxoG recognition site [nucleotide binding] 1007105007259 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1007105007260 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1007105007261 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1007105007262 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1007105007263 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1007105007264 rod shape-determining protein MreC; Provisional; Region: PRK13922 1007105007265 rod shape-determining protein MreC; Region: MreC; pfam04085 1007105007266 rod shape-determining protein MreB; Provisional; Region: PRK13927 1007105007267 MreB and similar proteins; Region: MreB_like; cd10225 1007105007268 nucleotide binding site [chemical binding]; other site 1007105007269 Mg binding site [ion binding]; other site 1007105007270 putative protofilament interaction site [polypeptide binding]; other site 1007105007271 RodZ interaction site [polypeptide binding]; other site 1007105007272 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1007105007273 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1007105007274 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1007105007275 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1007105007276 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1007105007277 GatB domain; Region: GatB_Yqey; smart00845 1007105007278 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105007279 active site 1007105007280 Predicted membrane protein [Function unknown]; Region: COG2259 1007105007281 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1007105007282 putative active site [active] 1007105007283 putative catalytic site [active] 1007105007284 putative DNA binding site [nucleotide binding]; other site 1007105007285 putative phosphate binding site [ion binding]; other site 1007105007286 metal binding site A [ion binding]; metal-binding site 1007105007287 putative AP binding site [nucleotide binding]; other site 1007105007288 putative metal binding site B [ion binding]; other site 1007105007289 Predicted membrane protein [Function unknown]; Region: COG2860 1007105007290 UPF0126 domain; Region: UPF0126; pfam03458 1007105007291 UPF0126 domain; Region: UPF0126; pfam03458 1007105007292 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1007105007293 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 1007105007294 putative substrate translocation pore; other site 1007105007295 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1007105007296 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 1007105007297 S-adenosylmethionine binding site [chemical binding]; other site 1007105007298 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1007105007299 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1007105007300 glutamate--cysteine ligase; Provisional; Region: PRK02107 1007105007301 Predicted membrane protein [Function unknown]; Region: COG1971 1007105007302 Domain of unknown function DUF; Region: DUF204; pfam02659 1007105007303 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1007105007304 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105007305 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 1007105007306 substrate binding site [chemical binding]; other site 1007105007307 oxyanion hole (OAH) forming residues; other site 1007105007308 trimer interface [polypeptide binding]; other site 1007105007309 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105007310 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105007311 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105007312 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105007313 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105007314 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105007315 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105007316 active site pocket [active] 1007105007317 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1007105007318 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007319 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1007105007320 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105007321 acyl-activating enzyme (AAE) consensus motif; other site 1007105007322 AMP binding site [chemical binding]; other site 1007105007323 active site 1007105007324 CoA binding site [chemical binding]; other site 1007105007325 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 1007105007326 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 1007105007327 substrate binding site [chemical binding]; other site 1007105007328 oxyanion hole (OAH) forming residues; other site 1007105007329 trimer interface [polypeptide binding]; other site 1007105007330 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1007105007331 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1007105007332 NADP binding site [chemical binding]; other site 1007105007333 dimer interface [polypeptide binding]; other site 1007105007334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105007335 NAD(P) binding site [chemical binding]; other site 1007105007336 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1007105007337 active site 1007105007338 Predicted transcriptional regulators [Transcription]; Region: COG1733 1007105007339 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1007105007340 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1007105007341 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1007105007342 PhnA protein; Region: PhnA; pfam03831 1007105007343 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1007105007344 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1007105007345 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1007105007346 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105007347 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105007348 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105007349 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105007350 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105007351 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1007105007352 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1007105007353 FMN binding site [chemical binding]; other site 1007105007354 substrate binding site [chemical binding]; other site 1007105007355 putative catalytic residue [active] 1007105007356 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1007105007357 Part of AAA domain; Region: AAA_19; pfam13245 1007105007358 Family description; Region: UvrD_C_2; pfam13538 1007105007359 primosome assembly protein PriA; Validated; Region: PRK05580 1007105007360 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 1007105007361 ATP binding site [chemical binding]; other site 1007105007362 putative Mg++ binding site [ion binding]; other site 1007105007363 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1007105007364 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1007105007365 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 1007105007366 substrate binding site [chemical binding]; other site 1007105007367 active site 1007105007368 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1007105007369 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1007105007370 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1007105007371 gamma subunit interface [polypeptide binding]; other site 1007105007372 epsilon subunit interface [polypeptide binding]; other site 1007105007373 LBP interface [polypeptide binding]; other site 1007105007374 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1007105007375 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1007105007376 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 1007105007377 alpha subunit interaction interface [polypeptide binding]; other site 1007105007378 Walker A motif; other site 1007105007379 ATP binding site [chemical binding]; other site 1007105007380 Walker B motif; other site 1007105007381 inhibitor binding site; inhibition site 1007105007382 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1007105007383 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1007105007384 core domain interface [polypeptide binding]; other site 1007105007385 delta subunit interface [polypeptide binding]; other site 1007105007386 epsilon subunit interface [polypeptide binding]; other site 1007105007387 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1007105007388 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1007105007389 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 1007105007390 beta subunit interaction interface [polypeptide binding]; other site 1007105007391 Walker A motif; other site 1007105007392 ATP binding site [chemical binding]; other site 1007105007393 Walker B motif; other site 1007105007394 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1007105007395 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1007105007396 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1007105007397 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1007105007398 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1007105007399 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1007105007400 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1007105007401 enoyl-CoA hydratase; Provisional; Region: PRK05862 1007105007402 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 1007105007403 substrate binding site [chemical binding]; other site 1007105007404 oxyanion hole (OAH) forming residues; other site 1007105007405 trimer interface [polypeptide binding]; other site 1007105007406 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1007105007407 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1007105007408 protein binding site [polypeptide binding]; other site 1007105007409 PDZ domain; Region: PDZ_2; pfam13180 1007105007410 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1007105007411 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105007412 Dihydroneopterin aldolase; Region: FolB; pfam02152 1007105007413 active site 1007105007414 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1007105007415 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1007105007416 Ligand Binding Site [chemical binding]; other site 1007105007417 putative mechanosensitive channel protein; Provisional; Region: PRK11465 1007105007418 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1007105007419 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1007105007420 Flavoprotein; Region: Flavoprotein; pfam02441 1007105007421 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 1007105007422 putative GSH binding site [chemical binding]; other site 1007105007423 catalytic residues [active] 1007105007424 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1007105007425 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 1007105007426 S-adenosylmethionine binding site [chemical binding]; other site 1007105007427 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1007105007428 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1007105007429 RF-1 domain; Region: RF-1; pfam00472 1007105007430 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1007105007431 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1007105007432 tRNA; other site 1007105007433 putative tRNA binding site [nucleotide binding]; other site 1007105007434 putative NADP binding site [chemical binding]; other site 1007105007435 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1007105007436 integrase; Provisional; Region: PRK09692 1007105007437 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 1007105007438 active site 1007105007439 Int/Topo IB signature motif; other site 1007105007440 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1007105007441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105007442 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105007443 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105007444 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105007445 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1007105007446 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105007447 NAD(P) binding site [chemical binding]; other site 1007105007448 catalytic residues [active] 1007105007449 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 1007105007450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105007451 putative substrate translocation pore; other site 1007105007452 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 1007105007453 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1007105007454 catalytic loop [active] 1007105007455 iron binding site [ion binding]; other site 1007105007456 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 1007105007457 FAD binding pocket [chemical binding]; other site 1007105007458 conserved FAD binding motif [chemical binding]; other site 1007105007459 phosphate binding motif [ion binding]; other site 1007105007460 beta-alpha-beta structure motif; other site 1007105007461 NAD binding pocket [chemical binding]; other site 1007105007462 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1007105007463 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1007105007464 active site 1007105007465 catalytic residues [active] 1007105007466 metal binding site [ion binding]; metal-binding site 1007105007467 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1007105007468 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1007105007469 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1007105007470 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1007105007471 DctM-like transporters; Region: DctM; pfam06808 1007105007472 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105007473 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105007474 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105007475 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 1007105007476 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1007105007477 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1007105007478 [2Fe-2S] cluster binding site [ion binding]; other site 1007105007479 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1007105007480 alpha subunit interface [polypeptide binding]; other site 1007105007481 active site 1007105007482 substrate binding site [chemical binding]; other site 1007105007483 Fe binding site [ion binding]; other site 1007105007484 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105007485 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 1007105007486 putative DNA binding site [nucleotide binding]; other site 1007105007487 putative Zn2+ binding site [ion binding]; other site 1007105007488 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105007489 Integrase core domain; Region: rve_3; pfam13683 1007105007490 HTH-like domain; Region: HTH_21; pfam13276 1007105007491 Transposase; Region: HTH_Tnp_1; cl17663 1007105007492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105007493 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1007105007494 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105007495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105007496 FOG: CBS domain [General function prediction only]; Region: COG0517 1007105007497 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 1007105007498 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1007105007499 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1007105007500 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 1007105007501 proximal heme binding site [chemical binding]; other site 1007105007502 Iron-sulfur protein interface; other site 1007105007503 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 1007105007504 putative SdhC subunit interface [polypeptide binding]; other site 1007105007505 putative proximal heme binding site [chemical binding]; other site 1007105007506 putative Iron-sulfur protein interface [polypeptide binding]; other site 1007105007507 putative proximal quinone binding site; other site 1007105007508 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1007105007509 L-aspartate oxidase; Provisional; Region: PRK06175 1007105007510 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1007105007511 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1007105007512 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 1007105007513 catalytic loop [active] 1007105007514 iron binding site [ion binding]; other site 1007105007515 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1007105007516 MPN+ (JAMM) motif; other site 1007105007517 Zinc-binding site [ion binding]; other site 1007105007518 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 1007105007519 Predicted transcriptional regulator [Transcription]; Region: COG3905 1007105007520 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1007105007521 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 1007105007522 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1007105007523 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1007105007524 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1007105007525 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 1007105007526 ligand binding site [chemical binding]; other site 1007105007527 flexible hinge region; other site 1007105007528 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 1007105007529 putative switch regulator; other site 1007105007530 non-specific DNA interactions [nucleotide binding]; other site 1007105007531 DNA binding site [nucleotide binding] 1007105007532 sequence specific DNA binding site [nucleotide binding]; other site 1007105007533 putative cAMP binding site [chemical binding]; other site 1007105007534 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1007105007535 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1007105007536 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1007105007537 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 1007105007538 metal-binding site [ion binding] 1007105007539 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1007105007540 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1007105007541 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1007105007542 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1007105007543 Predicted membrane protein [Function unknown]; Region: COG2259 1007105007544 Pirin-related protein [General function prediction only]; Region: COG1741 1007105007545 Pirin; Region: Pirin; pfam02678 1007105007546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105007547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007548 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1007105007549 putative effector binding pocket; other site 1007105007550 dimerization interface [polypeptide binding]; other site 1007105007551 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1007105007552 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1007105007553 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1007105007554 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 1007105007555 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1007105007556 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1007105007557 metal binding site [ion binding]; metal-binding site 1007105007558 putative dimer interface [polypeptide binding]; other site 1007105007559 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1007105007560 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1007105007561 putative active site [active] 1007105007562 metal binding site [ion binding]; metal-binding site 1007105007563 PAS domain S-box; Region: sensory_box; TIGR00229 1007105007564 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 1007105007565 putative active site [active] 1007105007566 heme pocket [chemical binding]; other site 1007105007567 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1007105007568 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 1007105007569 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1007105007570 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1007105007571 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105007572 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 1007105007573 dimer interface [polypeptide binding]; other site 1007105007574 phosphorylation site [posttranslational modification] 1007105007575 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 1007105007576 ATP binding site [chemical binding]; other site 1007105007577 Mg2+ binding site [ion binding]; other site 1007105007578 G-X-G motif; other site 1007105007579 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105007580 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 1007105007581 active site 1007105007582 phosphorylation site [posttranslational modification] 1007105007583 intermolecular recognition site; other site 1007105007584 dimerization interface [polypeptide binding]; other site 1007105007585 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1007105007586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105007587 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1007105007588 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1007105007589 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1007105007590 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105007591 ligand binding site [chemical binding]; other site 1007105007592 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1007105007593 trimer interface [polypeptide binding]; other site 1007105007594 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1007105007595 trimer interface [polypeptide binding]; other site 1007105007596 Haemagglutinin; Region: HIM; pfam05662 1007105007597 YadA-like C-terminal region; Region: YadA; pfam03895 1007105007598 Response regulator receiver domain; Region: Response_reg; pfam00072 1007105007599 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 1007105007600 active site 1007105007601 phosphorylation site [posttranslational modification] 1007105007602 intermolecular recognition site; other site 1007105007603 dimerization interface [polypeptide binding]; other site 1007105007604 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1007105007605 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1007105007606 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1007105007607 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1007105007608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105007609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105007610 active site 1007105007611 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1007105007612 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1007105007613 dimerization domain [polypeptide binding]; other site 1007105007614 dimer interface [polypeptide binding]; other site 1007105007615 catalytic residues [active] 1007105007616 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1007105007617 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1007105007618 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1007105007619 MltA specific insert domain; Region: MltA; smart00925 1007105007620 3D domain; Region: 3D; pfam06725 1007105007621 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1007105007622 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 1007105007623 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1007105007624 substrate binding site [chemical binding]; other site 1007105007625 hexamer interface [polypeptide binding]; other site 1007105007626 metal binding site [ion binding]; metal-binding site 1007105007627 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1007105007628 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 1007105007629 motif II; other site 1007105007630 anthranilate synthase component I; Provisional; Region: PRK13565 1007105007631 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1007105007632 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1007105007633 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1007105007634 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1007105007635 glutamine binding [chemical binding]; other site 1007105007636 catalytic triad [active] 1007105007637 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1007105007638 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1007105007639 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1007105007640 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 1007105007641 active site 1007105007642 ribulose/triose binding site [chemical binding]; other site 1007105007643 phosphate binding site [ion binding]; other site 1007105007644 substrate (anthranilate) binding pocket [chemical binding]; other site 1007105007645 product (indole) binding pocket [chemical binding]; other site 1007105007646 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1007105007647 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1007105007648 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1007105007649 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1007105007650 nucleotide binding site/active site [active] 1007105007651 HIT family signature motif; other site 1007105007652 catalytic residue [active] 1007105007653 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1007105007654 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 1007105007655 ATP binding site [chemical binding]; other site 1007105007656 Mg++ binding site [ion binding]; other site 1007105007657 motif III; other site 1007105007658 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 1007105007659 nucleotide binding region [chemical binding]; other site 1007105007660 ATP-binding site [chemical binding]; other site 1007105007661 thiamine pyrophosphate protein; Validated; Region: PRK08199 1007105007662 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105007663 PYR/PP interface [polypeptide binding]; other site 1007105007664 dimer interface [polypeptide binding]; other site 1007105007665 TPP binding site [chemical binding]; other site 1007105007666 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105007667 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 1007105007668 TPP-binding site [chemical binding]; other site 1007105007669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105007670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007671 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1007105007672 putative dimerization interface [polypeptide binding]; other site 1007105007673 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007674 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1007105007675 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1007105007676 dimerization interface [polypeptide binding]; other site 1007105007677 NAD binding site [chemical binding]; other site 1007105007678 ligand binding site [chemical binding]; other site 1007105007679 catalytic site [active] 1007105007680 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1007105007681 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 1007105007682 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1007105007683 active site 1007105007684 NTP binding site [chemical binding]; other site 1007105007685 metal binding triad [ion binding]; metal-binding site 1007105007686 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1007105007687 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1007105007688 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 1007105007689 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105007690 catalytic residue [active] 1007105007691 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1007105007692 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1007105007693 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 1007105007694 FAD binding site [chemical binding]; other site 1007105007695 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1007105007696 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1007105007697 homotetramer interface [polypeptide binding]; other site 1007105007698 ligand binding site [chemical binding]; other site 1007105007699 catalytic site [active] 1007105007700 NAD binding site [chemical binding]; other site 1007105007701 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1007105007702 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1007105007703 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1007105007704 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1007105007705 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1007105007706 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1007105007707 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1007105007708 putative acyl-acceptor binding pocket; other site 1007105007709 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1007105007710 putative acyl-acceptor binding pocket; other site 1007105007711 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1007105007712 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1007105007713 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105007714 active site 1007105007715 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1007105007716 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 1007105007717 S-adenosylmethionine binding site [chemical binding]; other site 1007105007718 Response regulator receiver domain; Region: Response_reg; pfam00072 1007105007719 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 1007105007720 active site 1007105007721 phosphorylation site [posttranslational modification] 1007105007722 intermolecular recognition site; other site 1007105007723 dimerization interface [polypeptide binding]; other site 1007105007724 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1007105007725 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 1007105007726 dimerization interface [polypeptide binding]; other site 1007105007727 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 1007105007728 dimer interface [polypeptide binding]; other site 1007105007729 phosphorylation site [posttranslational modification] 1007105007730 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 1007105007731 ATP binding site [chemical binding]; other site 1007105007732 Mg2+ binding site [ion binding]; other site 1007105007733 G-X-G motif; other site 1007105007734 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1007105007735 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1007105007736 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 1007105007737 S-adenosylmethionine binding site [chemical binding]; other site 1007105007738 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1007105007739 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1007105007740 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 1007105007741 FeS/SAM binding site; other site 1007105007742 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1007105007743 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 1007105007744 S-adenosylmethionine binding site [chemical binding]; other site 1007105007745 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1007105007746 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1007105007747 putative active site [active] 1007105007748 substrate binding site [chemical binding]; other site 1007105007749 putative cosubstrate binding site; other site 1007105007750 catalytic site [active] 1007105007751 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1007105007752 substrate binding site [chemical binding]; other site 1007105007753 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 1007105007754 active site 1007105007755 catalytic residues [active] 1007105007756 metal binding site [ion binding]; metal-binding site 1007105007757 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1007105007758 DNA protecting protein DprA; Region: dprA; TIGR00732 1007105007759 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1007105007760 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1007105007761 active site 1007105007762 catalytic residues [active] 1007105007763 metal binding site [ion binding]; metal-binding site 1007105007764 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1007105007765 homotrimer interaction site [polypeptide binding]; other site 1007105007766 putative active site [active] 1007105007767 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1007105007768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007769 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1007105007770 dimerization interface [polypeptide binding]; other site 1007105007771 substrate binding pocket [chemical binding]; other site 1007105007772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105007773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105007774 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_22; cd08359 1007105007775 putative dimer interface [polypeptide binding]; other site 1007105007776 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105007777 MarR family; Region: MarR_2; cl17246 1007105007778 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1007105007779 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1007105007780 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 1007105007781 substrate binding pocket [chemical binding]; other site 1007105007782 membrane-bound complex binding site; other site 1007105007783 hinge residues; other site 1007105007784 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105007785 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1007105007786 acyl-activating enzyme (AAE) consensus motif; other site 1007105007787 AMP binding site [chemical binding]; other site 1007105007788 active site 1007105007789 CoA binding site [chemical binding]; other site 1007105007790 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105007791 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105007792 Walker A/P-loop; other site 1007105007793 ATP binding site [chemical binding]; other site 1007105007794 Q-loop/lid; other site 1007105007795 ABC transporter signature motif; other site 1007105007796 Walker B; other site 1007105007797 D-loop; other site 1007105007798 H-loop/switch region; other site 1007105007799 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 1007105007800 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105007801 putative ligand binding site [chemical binding]; other site 1007105007802 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105007803 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105007804 TM-ABC transporter signature motif; other site 1007105007805 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105007806 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105007807 TM-ABC transporter signature motif; other site 1007105007808 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105007809 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105007810 Walker A/P-loop; other site 1007105007811 ATP binding site [chemical binding]; other site 1007105007812 Q-loop/lid; other site 1007105007813 ABC transporter signature motif; other site 1007105007814 Walker B; other site 1007105007815 D-loop; other site 1007105007816 H-loop/switch region; other site 1007105007817 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1007105007818 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105007819 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1007105007820 acyl-activating enzyme (AAE) consensus motif; other site 1007105007821 putative AMP binding site [chemical binding]; other site 1007105007822 putative active site [active] 1007105007823 putative CoA binding site [chemical binding]; other site 1007105007824 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1007105007825 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 1007105007826 ligand binding site [chemical binding]; other site 1007105007827 flexible hinge region; other site 1007105007828 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1007105007829 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105007830 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1007105007831 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1007105007832 CysD dimerization site [polypeptide binding]; other site 1007105007833 G1 box; other site 1007105007834 putative GEF interaction site [polypeptide binding]; other site 1007105007835 GTP/Mg2+ binding site [chemical binding]; other site 1007105007836 Switch I region; other site 1007105007837 G2 box; other site 1007105007838 G3 box; other site 1007105007839 Switch II region; other site 1007105007840 G4 box; other site 1007105007841 G5 box; other site 1007105007842 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 1007105007843 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 1007105007844 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1007105007845 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 1007105007846 Active Sites [active] 1007105007847 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1007105007848 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 1007105007849 Active Sites [active] 1007105007850 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1007105007851 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1007105007852 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1007105007853 NAD(P) binding site [chemical binding]; other site 1007105007854 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1007105007855 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 1007105007856 active site 1007105007857 phosphorylation site [posttranslational modification] 1007105007858 intermolecular recognition site; other site 1007105007859 dimerization interface [polypeptide binding]; other site 1007105007860 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 1007105007861 Walker A motif; other site 1007105007862 ATP binding site [chemical binding]; other site 1007105007863 Walker B motif; other site 1007105007864 arginine finger; other site 1007105007865 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1007105007866 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1007105007867 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 1007105007868 Walker A motif; other site 1007105007869 ATP binding site [chemical binding]; other site 1007105007870 Walker B motif; other site 1007105007871 arginine finger; other site 1007105007872 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1007105007873 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1007105007874 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1007105007875 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1007105007876 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1007105007877 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1007105007878 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105007879 Walker A/P-loop; other site 1007105007880 ATP binding site [chemical binding]; other site 1007105007881 Q-loop/lid; other site 1007105007882 ABC transporter signature motif; other site 1007105007883 Walker B; other site 1007105007884 D-loop; other site 1007105007885 H-loop/switch region; other site 1007105007886 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 1007105007887 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105007888 substrate binding pocket [chemical binding]; other site 1007105007889 membrane-bound complex binding site; other site 1007105007890 hinge residues; other site 1007105007891 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105007892 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 1007105007893 dimer interface [polypeptide binding]; other site 1007105007894 conserved gate region; other site 1007105007895 putative PBP binding loops; other site 1007105007896 ABC-ATPase subunit interface; other site 1007105007897 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 1007105007898 dimer interface [polypeptide binding]; other site 1007105007899 conserved gate region; other site 1007105007900 putative PBP binding loops; other site 1007105007901 ABC-ATPase subunit interface; other site 1007105007902 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1007105007903 active site 1007105007904 homotetramer interface [polypeptide binding]; other site 1007105007905 homodimer interface [polypeptide binding]; other site 1007105007906 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1007105007907 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1007105007908 probable active site [active] 1007105007909 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1007105007910 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1007105007911 NAD(P) binding site [chemical binding]; other site 1007105007912 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1007105007913 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 1007105007914 substrate-cofactor binding pocket; other site 1007105007915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105007916 catalytic residue [active] 1007105007917 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1007105007918 DctM-like transporters; Region: DctM; pfam06808 1007105007919 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1007105007920 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1007105007921 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1007105007922 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1007105007923 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1007105007924 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1007105007925 CoenzymeA binding site [chemical binding]; other site 1007105007926 subunit interaction site [polypeptide binding]; other site 1007105007927 PHB binding site; other site 1007105007928 DNA recombination protein RmuC; Provisional; Region: PRK10361 1007105007929 RmuC family; Region: RmuC; pfam02646 1007105007930 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1007105007931 oligomerization interface [polypeptide binding]; other site 1007105007932 active site 1007105007933 metal binding site [ion binding]; metal-binding site 1007105007934 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 1007105007935 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1007105007936 active site 1007105007937 catalytic tetrad [active] 1007105007938 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 1007105007939 SlyX; Region: SlyX; pfam04102 1007105007940 aconitate hydratase; Validated; Region: PRK09277 1007105007941 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1007105007942 substrate binding site [chemical binding]; other site 1007105007943 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1007105007944 ligand binding site [chemical binding]; other site 1007105007945 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 1007105007946 substrate binding site [chemical binding]; other site 1007105007947 Ferredoxin [Energy production and conversion]; Region: COG1146 1007105007948 4Fe-4S binding domain; Region: Fer4; pfam00037 1007105007949 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1007105007950 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1007105007951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105007952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105007953 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 1007105007954 dimerization interface [polypeptide binding]; other site 1007105007955 hypothetical protein; Provisional; Region: PRK05463 1007105007956 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105007957 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105007958 DctM-like transporters; Region: DctM; pfam06808 1007105007959 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105007960 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1007105007961 amidase; Provisional; Region: PRK07056 1007105007962 Amidase; Region: Amidase; cl11426 1007105007963 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1007105007964 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1007105007965 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1007105007966 DctM-like transporters; Region: DctM; pfam06808 1007105007967 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105007968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1007105007969 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105007970 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1007105007971 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1007105007972 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105007973 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105007974 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105007975 DctM-like transporters; Region: DctM; pfam06808 1007105007976 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105007977 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105007978 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105007979 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1007105007980 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1007105007981 active site 1007105007982 FMN binding site [chemical binding]; other site 1007105007983 substrate binding site [chemical binding]; other site 1007105007984 homotetramer interface [polypeptide binding]; other site 1007105007985 catalytic residue [active] 1007105007986 EthD domain; Region: EthD; cl17553 1007105007987 EthD domain; Region: EthD; pfam07110 1007105007988 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105007989 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105007990 Walker A/P-loop; other site 1007105007991 ATP binding site [chemical binding]; other site 1007105007992 Q-loop/lid; other site 1007105007993 ABC transporter signature motif; other site 1007105007994 Walker B; other site 1007105007995 D-loop; other site 1007105007996 H-loop/switch region; other site 1007105007997 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105007998 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105007999 Walker A/P-loop; other site 1007105008000 ATP binding site [chemical binding]; other site 1007105008001 Q-loop/lid; other site 1007105008002 ABC transporter signature motif; other site 1007105008003 Walker B; other site 1007105008004 D-loop; other site 1007105008005 H-loop/switch region; other site 1007105008006 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1007105008007 classical (c) SDRs; Region: SDR_c; cd05233 1007105008008 NAD(P) binding site [chemical binding]; other site 1007105008009 active site 1007105008010 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105008011 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105008012 TM-ABC transporter signature motif; other site 1007105008013 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105008014 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008015 TM-ABC transporter signature motif; other site 1007105008016 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105008017 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1007105008018 putative ligand binding site [chemical binding]; other site 1007105008019 acyl-CoA synthetase; Validated; Region: PRK06145 1007105008020 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105008021 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1007105008022 acyl-activating enzyme (AAE) consensus motif; other site 1007105008023 acyl-activating enzyme (AAE) consensus motif; other site 1007105008024 putative AMP binding site [chemical binding]; other site 1007105008025 putative active site [active] 1007105008026 putative CoA binding site [chemical binding]; other site 1007105008027 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105008028 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1007105008029 active site 1007105008030 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1007105008031 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1007105008032 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 1007105008033 E3 interaction surface; other site 1007105008034 lipoyl attachment site [posttranslational modification]; other site 1007105008035 e3 binding domain; Region: E3_binding; pfam02817 1007105008036 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105008037 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1007105008038 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 1007105008039 substrate binding site [chemical binding]; other site 1007105008040 oxyanion hole (OAH) forming residues; other site 1007105008041 trimer interface [polypeptide binding]; other site 1007105008042 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1007105008043 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 1007105008044 alpha subunit interface [polypeptide binding]; other site 1007105008045 TPP binding site [chemical binding]; other site 1007105008046 heterodimer interface [polypeptide binding]; other site 1007105008047 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105008048 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 1007105008049 tetramer interface [polypeptide binding]; other site 1007105008050 TPP-binding site [chemical binding]; other site 1007105008051 heterodimer interface [polypeptide binding]; other site 1007105008052 phosphorylation loop region [posttranslational modification] 1007105008053 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 1007105008054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105008055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105008056 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1007105008057 putative dimerization interface [polypeptide binding]; other site 1007105008058 hypothetical protein; Validated; Region: PRK06201 1007105008059 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1007105008060 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1007105008061 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1007105008062 ligand binding site [chemical binding]; other site 1007105008063 NAD binding site [chemical binding]; other site 1007105008064 dimerization interface [polypeptide binding]; other site 1007105008065 catalytic site [active] 1007105008066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105008067 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 1007105008068 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1007105008069 phosphate binding site [ion binding]; other site 1007105008070 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 1007105008071 putative substrate translocation pore; other site 1007105008072 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105008073 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1007105008074 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 1007105008075 dimer interface [polypeptide binding]; other site 1007105008076 active site 1007105008077 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105008078 substrate binding site [chemical binding]; other site 1007105008079 catalytic residue [active] 1007105008080 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 1007105008081 putative substrate translocation pore; other site 1007105008082 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105008083 Bacteriophage protein GP30.3; Region: Phage_30_3; cl17603 1007105008084 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1007105008085 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 1007105008086 substrate binding pocket [chemical binding]; other site 1007105008087 membrane-bound complex binding site; other site 1007105008088 hinge residues; other site 1007105008089 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1007105008090 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105008091 Walker A/P-loop; other site 1007105008092 ATP binding site [chemical binding]; other site 1007105008093 Q-loop/lid; other site 1007105008094 ABC transporter signature motif; other site 1007105008095 Walker B; other site 1007105008096 D-loop; other site 1007105008097 H-loop/switch region; other site 1007105008098 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1007105008099 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1007105008100 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1007105008101 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 1007105008102 active site 2 [active] 1007105008103 active site 1 [active] 1007105008104 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1007105008105 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 1007105008106 catalytic loop [active] 1007105008107 iron binding site [ion binding]; other site 1007105008108 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1007105008109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105008110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105008111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105008112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105008113 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1007105008114 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 1007105008115 catalytic loop [active] 1007105008116 iron binding site [ion binding]; other site 1007105008117 enoyl-CoA hydratase; Provisional; Region: PRK06494 1007105008118 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 1007105008119 substrate binding site [chemical binding]; other site 1007105008120 oxyanion hole (OAH) forming residues; other site 1007105008121 trimer interface [polypeptide binding]; other site 1007105008122 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1007105008123 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1007105008124 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1007105008125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008126 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1007105008127 NAD(P) binding site [chemical binding]; other site 1007105008128 active site 1007105008129 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 1007105008130 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1007105008131 enoyl-CoA hydratase; Region: PLN02864 1007105008132 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 1007105008133 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1007105008134 dimer interaction site [polypeptide binding]; other site 1007105008135 substrate-binding tunnel; other site 1007105008136 active site 1007105008137 catalytic site [active] 1007105008138 substrate binding site [chemical binding]; other site 1007105008139 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1007105008140 active site 1007105008141 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1007105008142 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1007105008143 DUF35 OB-fold domain; Region: DUF35; pfam01796 1007105008144 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105008145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008146 NAD(P) binding site [chemical binding]; other site 1007105008147 active site 1007105008148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105008149 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1007105008150 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105008151 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1007105008152 acyl-activating enzyme (AAE) consensus motif; other site 1007105008153 acyl-activating enzyme (AAE) consensus motif; other site 1007105008154 putative AMP binding site [chemical binding]; other site 1007105008155 putative active site [active] 1007105008156 putative CoA binding site [chemical binding]; other site 1007105008157 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105008158 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1007105008159 active site 1007105008160 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105008161 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105008162 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1007105008163 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1007105008164 Cytochrome P450; Region: p450; cl12078 1007105008165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105008166 classical (c) SDRs; Region: SDR_c; cd05233 1007105008167 NAD(P) binding site [chemical binding]; other site 1007105008168 active site 1007105008169 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1007105008170 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1007105008171 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 1007105008172 active site residue [active] 1007105008173 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 1007105008174 active site residue [active] 1007105008175 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1007105008176 active site residue [active] 1007105008177 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 1007105008178 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1007105008179 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1007105008180 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1007105008181 Ligand binding site; other site 1007105008182 Putative Catalytic site; other site 1007105008183 DXD motif; other site 1007105008184 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105008185 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 1007105008186 active site 1007105008187 phosphorylation site [posttranslational modification] 1007105008188 intermolecular recognition site; other site 1007105008189 dimerization interface [polypeptide binding]; other site 1007105008190 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 1007105008191 DNA binding site [nucleotide binding] 1007105008192 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1007105008193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105008194 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 1007105008195 dimer interface [polypeptide binding]; other site 1007105008196 phosphorylation site [posttranslational modification] 1007105008197 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 1007105008198 ATP binding site [chemical binding]; other site 1007105008199 Mg2+ binding site [ion binding]; other site 1007105008200 G-X-G motif; other site 1007105008201 GtrA-like protein; Region: GtrA; pfam04138 1007105008202 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1007105008203 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1007105008204 Ligand binding site; other site 1007105008205 Putative Catalytic site; other site 1007105008206 DXD motif; other site 1007105008207 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1007105008208 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1007105008209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105008210 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1007105008211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008212 NAD(P) binding site [chemical binding]; other site 1007105008213 active site 1007105008214 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1007105008215 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105008216 PYR/PP interface [polypeptide binding]; other site 1007105008217 dimer interface [polypeptide binding]; other site 1007105008218 TPP binding site [chemical binding]; other site 1007105008219 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105008220 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 1007105008221 TPP-binding site [chemical binding]; other site 1007105008222 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105008223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105008224 DNA-binding site [nucleotide binding]; DNA binding site 1007105008225 FCD domain; Region: FCD; pfam07729 1007105008226 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1007105008227 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1007105008228 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1007105008229 active site 1007105008230 FMN binding site [chemical binding]; other site 1007105008231 substrate binding site [chemical binding]; other site 1007105008232 homotetramer interface [polypeptide binding]; other site 1007105008233 catalytic residue [active] 1007105008234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008235 NAD(P) binding site [chemical binding]; other site 1007105008236 active site 1007105008237 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1007105008238 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105008239 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1007105008240 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105008241 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105008242 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1007105008243 AMP-binding enzyme; Region: AMP-binding; pfam00501 1007105008244 acyl-activating enzyme (AAE) consensus motif; other site 1007105008245 putative AMP binding site [chemical binding]; other site 1007105008246 putative active site [active] 1007105008247 putative CoA binding site [chemical binding]; other site 1007105008248 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105008249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105008250 active site 1007105008251 DctM-like transporters; Region: DctM; pfam06808 1007105008252 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105008253 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105008254 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105008255 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 1007105008256 active site 2 [active] 1007105008257 active site 1 [active] 1007105008258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105008259 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 1007105008260 dimerization interface [polypeptide binding]; other site 1007105008261 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 1007105008262 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1007105008263 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 1007105008264 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105008265 catalytic residues [active] 1007105008266 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1007105008267 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1007105008268 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1007105008269 active site 1007105008270 NAD binding site [chemical binding]; other site 1007105008271 metal binding site [ion binding]; metal-binding site 1007105008272 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105008273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105008274 DNA-binding site [nucleotide binding]; DNA binding site 1007105008275 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105008276 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1007105008277 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1007105008278 Walker A/P-loop; other site 1007105008279 ATP binding site [chemical binding]; other site 1007105008280 Q-loop/lid; other site 1007105008281 ABC transporter signature motif; other site 1007105008282 Walker B; other site 1007105008283 D-loop; other site 1007105008284 H-loop/switch region; other site 1007105008285 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1007105008286 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008287 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1007105008288 TM-ABC transporter signature motif; other site 1007105008289 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1007105008290 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1007105008291 putative ligand binding site [chemical binding]; other site 1007105008292 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1007105008293 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1007105008294 conserved cys residue [active] 1007105008295 putative S-transferase; Provisional; Region: PRK11752 1007105008296 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 1007105008297 C-terminal domain interface [polypeptide binding]; other site 1007105008298 GSH binding site (G-site) [chemical binding]; other site 1007105008299 dimer interface [polypeptide binding]; other site 1007105008300 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1007105008301 dimer interface [polypeptide binding]; other site 1007105008302 N-terminal domain interface [polypeptide binding]; other site 1007105008303 active site 1007105008304 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1007105008305 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 1007105008306 active site 1007105008307 motif I; other site 1007105008308 motif II; other site 1007105008309 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105008310 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105008311 DctM-like transporters; Region: DctM; pfam06808 1007105008312 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105008313 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105008314 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105008315 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1007105008316 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1007105008317 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1007105008318 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1007105008319 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1007105008320 MarR family; Region: MarR_2; cl17246 1007105008321 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105008322 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1007105008323 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1007105008324 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 1007105008325 glutaminase active site [active] 1007105008326 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 1007105008327 dimer interface [polypeptide binding]; other site 1007105008328 active site 1007105008329 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 1007105008330 dimer interface [polypeptide binding]; other site 1007105008331 active site 1007105008332 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1007105008333 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 1007105008334 putative DNA binding site [nucleotide binding]; other site 1007105008335 putative Zn2+ binding site [ion binding]; other site 1007105008336 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105008337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105008338 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 1007105008339 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 1007105008340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105008341 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 1007105008342 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1007105008343 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1007105008344 Substrate binding site; other site 1007105008345 Mg++ binding site; other site 1007105008346 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 1007105008347 active site 1007105008348 substrate binding site [chemical binding]; other site 1007105008349 CoA binding site [chemical binding]; other site 1007105008350 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 1007105008351 nudix motif; other site 1007105008352 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1007105008353 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1007105008354 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1007105008355 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105008356 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105008357 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1007105008358 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 1007105008359 Subunit I/III interface [polypeptide binding]; other site 1007105008360 D-pathway; other site 1007105008361 Subunit I/VIIc interface [polypeptide binding]; other site 1007105008362 Subunit I/IV interface [polypeptide binding]; other site 1007105008363 Subunit I/II interface [polypeptide binding]; other site 1007105008364 Low-spin heme (heme a) binding site [chemical binding]; other site 1007105008365 Subunit I/VIIa interface [polypeptide binding]; other site 1007105008366 Subunit I/VIa interface [polypeptide binding]; other site 1007105008367 Dimer interface; other site 1007105008368 Putative water exit pathway; other site 1007105008369 Binuclear center (heme a3/CuB) [ion binding]; other site 1007105008370 K-pathway; other site 1007105008371 Subunit I/Vb interface [polypeptide binding]; other site 1007105008372 Putative proton exit pathway; other site 1007105008373 Subunit I/VIb interface; other site 1007105008374 Subunit I/VIc interface [polypeptide binding]; other site 1007105008375 Electron transfer pathway; other site 1007105008376 Subunit I/VIIIb interface [polypeptide binding]; other site 1007105008377 Subunit I/VIIb interface [polypeptide binding]; other site 1007105008378 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1007105008379 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 1007105008380 Subunit III/VIIa interface [polypeptide binding]; other site 1007105008381 Phospholipid binding site [chemical binding]; other site 1007105008382 Subunit I/III interface [polypeptide binding]; other site 1007105008383 Subunit III/VIb interface [polypeptide binding]; other site 1007105008384 Subunit III/VIa interface; other site 1007105008385 Subunit III/Vb interface [polypeptide binding]; other site 1007105008386 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1007105008387 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 1007105008388 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105008389 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1007105008390 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1007105008391 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1007105008392 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1007105008393 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 1007105008394 Cu(I) binding site [ion binding]; other site 1007105008395 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1007105008396 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1007105008397 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 1007105008398 ligand binding site [chemical binding]; other site 1007105008399 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1007105008400 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105008401 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 1007105008402 DNA binding residues [nucleotide binding] 1007105008403 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105008404 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1007105008405 putative ligand binding site [chemical binding]; other site 1007105008406 S-formylglutathione hydrolase; Region: PLN02442 1007105008407 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1007105008408 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1007105008409 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1007105008410 substrate binding site [chemical binding]; other site 1007105008411 catalytic Zn binding site [ion binding]; other site 1007105008412 NAD binding site [chemical binding]; other site 1007105008413 structural Zn binding site [ion binding]; other site 1007105008414 dimer interface [polypeptide binding]; other site 1007105008415 Ethylene insensitive 3; Region: EIN3; cl04813 1007105008416 cardiolipin synthase 2; Provisional; Region: PRK11263 1007105008417 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1007105008418 putative active site [active] 1007105008419 catalytic site [active] 1007105008420 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1007105008421 putative active site [active] 1007105008422 catalytic site [active] 1007105008423 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 1007105008424 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1007105008425 substrate binding pocket [chemical binding]; other site 1007105008426 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105008427 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1007105008428 putative catalytic site [active] 1007105008429 putative metal binding site [ion binding]; other site 1007105008430 putative phosphate binding site [ion binding]; other site 1007105008431 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1007105008432 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 1007105008433 dimer interface [polypeptide binding]; other site 1007105008434 anticodon binding site; other site 1007105008435 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 1007105008436 homodimer interface [polypeptide binding]; other site 1007105008437 motif 1; other site 1007105008438 active site 1007105008439 motif 2; other site 1007105008440 GAD domain; Region: GAD; pfam02938 1007105008441 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 1007105008442 motif 3; other site 1007105008443 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1007105008444 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1007105008445 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1007105008446 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1007105008447 UbiA prenyltransferase family; Region: UbiA; pfam01040 1007105008448 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1007105008449 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 1007105008450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105008451 homodimer interface [polypeptide binding]; other site 1007105008452 catalytic residue [active] 1007105008453 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1007105008454 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 1007105008455 iron-sulfur cluster [ion binding]; other site 1007105008456 [2Fe-2S] cluster binding site [ion binding]; other site 1007105008457 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1007105008458 alpha subunit interface [polypeptide binding]; other site 1007105008459 active site 1007105008460 substrate binding site [chemical binding]; other site 1007105008461 Fe binding site [ion binding]; other site 1007105008462 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1007105008463 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1007105008464 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1007105008465 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105008466 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105008467 Walker A/P-loop; other site 1007105008468 ATP binding site [chemical binding]; other site 1007105008469 Q-loop/lid; other site 1007105008470 ABC transporter signature motif; other site 1007105008471 Walker B; other site 1007105008472 D-loop; other site 1007105008473 H-loop/switch region; other site 1007105008474 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105008475 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 1007105008476 dimer interface [polypeptide binding]; other site 1007105008477 conserved gate region; other site 1007105008478 putative PBP binding loops; other site 1007105008479 ABC-ATPase subunit interface; other site 1007105008480 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105008481 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 1007105008482 dimer interface [polypeptide binding]; other site 1007105008483 conserved gate region; other site 1007105008484 putative PBP binding loops; other site 1007105008485 ABC-ATPase subunit interface; other site 1007105008486 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 1007105008487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105008488 substrate binding pocket [chemical binding]; other site 1007105008489 membrane-bound complex binding site; other site 1007105008490 hinge residues; other site 1007105008491 D-cysteine desulfhydrase; Validated; Region: PRK03910 1007105008492 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1007105008493 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105008494 catalytic residue [active] 1007105008495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105008496 cell density-dependent motility repressor; Provisional; Region: PRK10082 1007105008497 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1007105008498 dimerization interface [polypeptide binding]; other site 1007105008499 Transmembrane secretion effector; Region: MFS_3; pfam05977 1007105008500 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 1007105008501 putative substrate translocation pore; other site 1007105008502 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1007105008503 short chain dehydrogenase; Provisional; Region: PRK12829 1007105008504 classical (c) SDRs; Region: SDR_c; cd05233 1007105008505 NAD(P) binding site [chemical binding]; other site 1007105008506 active site 1007105008507 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105008508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105008509 DNA-binding site [nucleotide binding]; DNA binding site 1007105008510 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105008511 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1007105008512 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105008513 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1007105008514 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1007105008515 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 1007105008516 E3 interaction surface; other site 1007105008517 lipoyl attachment site [posttranslational modification]; other site 1007105008518 e3 binding domain; Region: E3_binding; pfam02817 1007105008519 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105008520 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1007105008521 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105008522 active site 1007105008523 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1007105008524 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 1007105008525 tetramer interface [polypeptide binding]; other site 1007105008526 TPP-binding site [chemical binding]; other site 1007105008527 heterodimer interface [polypeptide binding]; other site 1007105008528 phosphorylation loop region [posttranslational modification] 1007105008529 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1007105008530 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 1007105008531 alpha subunit interface [polypeptide binding]; other site 1007105008532 TPP binding site [chemical binding]; other site 1007105008533 heterodimer interface [polypeptide binding]; other site 1007105008534 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105008535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008536 short chain dehydrogenase; Provisional; Region: PRK06841 1007105008537 NAD(P) binding site [chemical binding]; other site 1007105008538 active site 1007105008539 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105008540 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105008541 Walker A/P-loop; other site 1007105008542 ATP binding site [chemical binding]; other site 1007105008543 Q-loop/lid; other site 1007105008544 ABC transporter signature motif; other site 1007105008545 Walker B; other site 1007105008546 D-loop; other site 1007105008547 H-loop/switch region; other site 1007105008548 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105008549 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105008550 Walker A/P-loop; other site 1007105008551 ATP binding site [chemical binding]; other site 1007105008552 Q-loop/lid; other site 1007105008553 ABC transporter signature motif; other site 1007105008554 Walker B; other site 1007105008555 D-loop; other site 1007105008556 H-loop/switch region; other site 1007105008557 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105008558 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105008559 TM-ABC transporter signature motif; other site 1007105008560 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008561 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105008562 TM-ABC transporter signature motif; other site 1007105008563 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105008564 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1007105008565 putative ligand binding site [chemical binding]; other site 1007105008566 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105008567 classical (c) SDRs; Region: SDR_c; cd05233 1007105008568 NAD(P) binding site [chemical binding]; other site 1007105008569 active site 1007105008570 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105008571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105008572 DNA-binding site [nucleotide binding]; DNA binding site 1007105008573 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105008574 choline dehydrogenase; Validated; Region: PRK02106 1007105008575 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1007105008576 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1007105008577 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1007105008578 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1007105008579 shikimate binding site; other site 1007105008580 NAD(P) binding site [chemical binding]; other site 1007105008581 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105008582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105008583 DNA-binding site [nucleotide binding]; DNA binding site 1007105008584 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105008585 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105008586 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1007105008587 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105008588 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008589 TM-ABC transporter signature motif; other site 1007105008590 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105008591 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105008592 TM-ABC transporter signature motif; other site 1007105008593 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105008594 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105008595 Walker A/P-loop; other site 1007105008596 ATP binding site [chemical binding]; other site 1007105008597 Q-loop/lid; other site 1007105008598 ABC transporter signature motif; other site 1007105008599 Walker B; other site 1007105008600 D-loop; other site 1007105008601 H-loop/switch region; other site 1007105008602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105008603 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105008604 Walker A/P-loop; other site 1007105008605 ATP binding site [chemical binding]; other site 1007105008606 Q-loop/lid; other site 1007105008607 ABC transporter signature motif; other site 1007105008608 Walker B; other site 1007105008609 D-loop; other site 1007105008610 H-loop/switch region; other site 1007105008611 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1007105008612 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1007105008613 NAD(P) binding site [chemical binding]; other site 1007105008614 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105008615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008616 NAD(P) binding site [chemical binding]; other site 1007105008617 active site 1007105008618 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1007105008619 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1007105008620 NADP binding site [chemical binding]; other site 1007105008621 dimer interface [polypeptide binding]; other site 1007105008622 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 1007105008623 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1007105008624 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1007105008625 Amidase; Region: Amidase; cl11426 1007105008626 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1007105008627 Amidase; Region: Amidase; pfam01425 1007105008628 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1007105008629 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1007105008630 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105008631 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105008632 Walker A/P-loop; other site 1007105008633 ATP binding site [chemical binding]; other site 1007105008634 Q-loop/lid; other site 1007105008635 ABC transporter signature motif; other site 1007105008636 Walker B; other site 1007105008637 D-loop; other site 1007105008638 H-loop/switch region; other site 1007105008639 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105008640 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105008641 Walker A/P-loop; other site 1007105008642 ATP binding site [chemical binding]; other site 1007105008643 Q-loop/lid; other site 1007105008644 ABC transporter signature motif; other site 1007105008645 Walker B; other site 1007105008646 D-loop; other site 1007105008647 H-loop/switch region; other site 1007105008648 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008649 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105008650 TM-ABC transporter signature motif; other site 1007105008651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105008652 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105008653 TM-ABC transporter signature motif; other site 1007105008654 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1007105008655 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1007105008656 DNA binding site [nucleotide binding] 1007105008657 domain linker motif; other site 1007105008658 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_7; cd06285 1007105008659 putative dimerization interface [polypeptide binding]; other site 1007105008660 putative ligand binding site [chemical binding]; other site 1007105008661 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1007105008662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105008663 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105008664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105008665 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1007105008666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105008667 NAD(P) binding site [chemical binding]; other site 1007105008668 active site 1007105008669 Putative cyclase; Region: Cyclase; cl00814 1007105008670 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1007105008671 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1007105008672 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1007105008673 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 1007105008674 dimer interface [polypeptide binding]; other site 1007105008675 conserved gate region; other site 1007105008676 putative PBP binding loops; other site 1007105008677 ABC-ATPase subunit interface; other site 1007105008678 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105008679 ABC transporter signature motif; other site 1007105008680 Walker B; other site 1007105008681 D-loop; other site 1007105008682 H-loop/switch region; other site 1007105008683 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1007105008684 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 1007105008685 homodimer interface [polypeptide binding]; other site 1007105008686 ligand binding site [chemical binding]; other site 1007105008687 NAD binding site [chemical binding]; other site 1007105008688 catalytic site [active] 1007105008689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105008690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105008691 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 1007105008692 putative dimerization interface [polypeptide binding]; other site 1007105008693 Integrase core domain; Region: rve_3; pfam13683 1007105008694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1007105008695 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 1007105008696 DNA binding site [nucleotide binding] 1007105008697 active site 1007105008698 Int/Topo IB signature motif; other site 1007105008699 catalytic residues [active] 1007105008700 Transposase; Region: HTH_Tnp_1; cl17663 1007105008701 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1007105008702 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1007105008703 putative active site [active] 1007105008704 putative NTP binding site [chemical binding]; other site 1007105008705 putative nucleic acid binding site [nucleotide binding]; other site 1007105008706 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1007105008707 Integrase core domain; Region: rve; pfam00665 1007105008708 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1007105008709 Helix-turn-helix domain; Region: HTH_38; pfam13936 1007105008710 Integrase core domain; Region: rve; pfam00665 1007105008711 Transposase; Region: HTH_Tnp_1; pfam01527 1007105008712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1007105008713 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105008714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105008715 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1007105008716 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105008717 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105008718 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105008719 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105008720 Integrase core domain; Region: rve_3; cl15866 1007105008721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1007105008722 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 1007105008723 DNA binding site [nucleotide binding] 1007105008724 active site 1007105008725 Int/Topo IB signature motif; other site 1007105008726 catalytic residues [active] 1007105008727 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1007105008728 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 1007105008729 active site 1007105008730 Int/Topo IB signature motif; other site 1007105008731 DNA binding site [nucleotide binding] 1007105008732 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1007105008733 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 1007105008734 dimer interface [polypeptide binding]; other site 1007105008735 ssDNA binding site [nucleotide binding]; other site 1007105008736 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1007105008737 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 1007105008738 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105008739 putative substrate translocation pore; other site 1007105008740 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1007105008741 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1007105008742 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1007105008743 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1007105008744 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1007105008745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1007105008746 Zn2+ binding site [ion binding]; other site 1007105008747 Mg2+ binding site [ion binding]; other site 1007105008748 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1007105008749 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1007105008750 active site 1007105008751 dimer interface [polypeptide binding]; other site 1007105008752 metal binding site [ion binding]; metal-binding site 1007105008753 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 1007105008754 shikimate kinase; Reviewed; Region: aroK; PRK00131 1007105008755 ADP binding site [chemical binding]; other site 1007105008756 magnesium binding site [ion binding]; other site 1007105008757 putative shikimate binding site; other site 1007105008758 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1007105008759 Transglycosylase; Region: Transgly; pfam00912 1007105008760 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1007105008761 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1007105008762 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1007105008763 active site 1007105008764 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105008765 substrate binding site [chemical binding]; other site 1007105008766 catalytic residues [active] 1007105008767 dimer interface [polypeptide binding]; other site 1007105008768 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1007105008769 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1007105008770 ResB-like family; Region: ResB; pfam05140 1007105008771 ResB-like family; Region: ResB; pfam05140 1007105008772 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1007105008773 Cytochrome c; Region: Cytochrom_C; cl11414 1007105008774 Cytochrome c; Region: Cytochrom_C; cl11414 1007105008775 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1007105008776 G1 box; other site 1007105008777 GTP/Mg2+ binding site [chemical binding]; other site 1007105008778 Switch I region; other site 1007105008779 G2 box; other site 1007105008780 G3 box; other site 1007105008781 Switch II region; other site 1007105008782 G4 box; other site 1007105008783 G5 box; other site 1007105008784 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 1007105008785 dimer interface [polypeptide binding]; other site 1007105008786 active site 1007105008787 aspartate-rich active site metal binding site; other site 1007105008788 allosteric magnesium binding site [ion binding]; other site 1007105008789 Schiff base residues; other site 1007105008790 Dodecin; Region: Dodecin; pfam07311 1007105008791 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1007105008792 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1007105008793 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1007105008794 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1007105008795 DsbD alpha interface [polypeptide binding]; other site 1007105008796 catalytic residues [active] 1007105008797 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1007105008798 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1007105008799 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1007105008800 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1007105008801 alphaNTD homodimer interface [polypeptide binding]; other site 1007105008802 alphaNTD - beta interaction site [polypeptide binding]; other site 1007105008803 alphaNTD - beta' interaction site [polypeptide binding]; other site 1007105008804 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1007105008805 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1007105008806 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1007105008807 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 1007105008808 RNA binding surface [nucleotide binding]; other site 1007105008809 30S ribosomal protein S11; Validated; Region: PRK05309 1007105008810 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1007105008811 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1007105008812 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1007105008813 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 1007105008814 rRNA binding site [nucleotide binding]; other site 1007105008815 predicted 30S ribosome binding site; other site 1007105008816 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1007105008817 SecY translocase; Region: SecY; pfam00344 1007105008818 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1007105008819 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1007105008820 23S rRNA binding site [nucleotide binding]; other site 1007105008821 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1007105008822 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1007105008823 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1007105008824 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 1007105008825 5S rRNA interface [nucleotide binding]; other site 1007105008826 L27 interface [polypeptide binding]; other site 1007105008827 23S rRNA interface [nucleotide binding]; other site 1007105008828 L5 interface [polypeptide binding]; other site 1007105008829 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1007105008830 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1007105008831 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1007105008832 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1007105008833 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1007105008834 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1007105008835 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1007105008836 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1007105008837 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1007105008838 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1007105008839 RNA binding site [nucleotide binding]; other site 1007105008840 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1007105008841 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105008842 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1007105008843 tetramerization interface [polypeptide binding]; other site 1007105008844 NAD(P) binding site [chemical binding]; other site 1007105008845 catalytic residues [active] 1007105008846 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 1007105008847 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 1007105008848 dimer interface [polypeptide binding]; other site 1007105008849 active site 1007105008850 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1007105008851 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 1007105008852 substrate binding site [chemical binding]; other site 1007105008853 oxyanion hole (OAH) forming residues; other site 1007105008854 trimer interface [polypeptide binding]; other site 1007105008855 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105008856 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105008857 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1007105008858 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1007105008859 acyl-activating enzyme (AAE) consensus motif; other site 1007105008860 putative AMP binding site [chemical binding]; other site 1007105008861 putative active site [active] 1007105008862 putative CoA binding site [chemical binding]; other site 1007105008863 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1007105008864 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 1007105008865 23S rRNA interface [nucleotide binding]; other site 1007105008866 putative translocon interaction site; other site 1007105008867 signal recognition particle (SRP54) interaction site; other site 1007105008868 L23 interface [polypeptide binding]; other site 1007105008869 trigger factor interaction site; other site 1007105008870 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 1007105008871 23S rRNA interface [nucleotide binding]; other site 1007105008872 5S rRNA interface [nucleotide binding]; other site 1007105008873 putative antibiotic binding site [chemical binding]; other site 1007105008874 L25 interface [polypeptide binding]; other site 1007105008875 L27 interface [polypeptide binding]; other site 1007105008876 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1007105008877 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 1007105008878 G-X-X-G motif; other site 1007105008879 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1007105008880 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 1007105008881 putative translocon binding site; other site 1007105008882 protein-rRNA interface [nucleotide binding]; other site 1007105008883 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1007105008884 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1007105008885 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1007105008886 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1007105008887 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1007105008888 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1007105008889 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1007105008890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105008891 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105008892 Walker A/P-loop; other site 1007105008893 ATP binding site [chemical binding]; other site 1007105008894 Q-loop/lid; other site 1007105008895 ABC transporter signature motif; other site 1007105008896 Walker B; other site 1007105008897 D-loop; other site 1007105008898 H-loop/switch region; other site 1007105008899 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1007105008900 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1007105008901 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1007105008902 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 1007105008903 dimer interface [polypeptide binding]; other site 1007105008904 conserved gate region; other site 1007105008905 ABC-ATPase subunit interface; other site 1007105008906 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 1007105008907 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105008908 putative substrate translocation pore; other site 1007105008909 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1007105008910 elongation factor Tu; Reviewed; Region: PRK00049 1007105008911 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1007105008912 G1 box; other site 1007105008913 GEF interaction site [polypeptide binding]; other site 1007105008914 GTP/Mg2+ binding site [chemical binding]; other site 1007105008915 Switch I region; other site 1007105008916 G2 box; other site 1007105008917 G3 box; other site 1007105008918 Switch II region; other site 1007105008919 G4 box; other site 1007105008920 G5 box; other site 1007105008921 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 1007105008922 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 1007105008923 Antibiotic Binding Site [chemical binding]; other site 1007105008924 elongation factor G; Reviewed; Region: PRK00007 1007105008925 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1007105008926 G1 box; other site 1007105008927 putative GEF interaction site [polypeptide binding]; other site 1007105008928 GTP/Mg2+ binding site [chemical binding]; other site 1007105008929 Switch I region; other site 1007105008930 G2 box; other site 1007105008931 G3 box; other site 1007105008932 Switch II region; other site 1007105008933 G4 box; other site 1007105008934 G5 box; other site 1007105008935 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 1007105008936 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 1007105008937 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 1007105008938 30S ribosomal protein S7; Validated; Region: PRK05302 1007105008939 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 1007105008940 streptomycin interaction site [chemical binding]; other site 1007105008941 23S rRNA interaction site [nucleotide binding]; other site 1007105008942 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1007105008943 16S rRNA interaction site [nucleotide binding]; other site 1007105008944 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105008945 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 1007105008946 active site 1007105008947 phosphorylation site [posttranslational modification] 1007105008948 intermolecular recognition site; other site 1007105008949 dimerization interface [polypeptide binding]; other site 1007105008950 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 1007105008951 DNA binding site [nucleotide binding] 1007105008952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1007105008953 FecR protein; Region: FecR; pfam04773 1007105008954 CHASE2 domain; Region: CHASE2; pfam05226 1007105008955 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1007105008956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105008957 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 1007105008958 ATP binding site [chemical binding]; other site 1007105008959 Mg2+ binding site [ion binding]; other site 1007105008960 G-X-G motif; other site 1007105008961 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1007105008962 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1007105008963 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1007105008964 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1007105008965 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1007105008966 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1007105008967 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1007105008968 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1007105008969 DNA binding site [nucleotide binding] 1007105008970 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1007105008971 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1007105008972 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 1007105008973 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1007105008974 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 1007105008975 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1007105008976 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 1007105008977 RPB3 interaction site [polypeptide binding]; other site 1007105008978 RPB1 interaction site [polypeptide binding]; other site 1007105008979 RPB11 interaction site [polypeptide binding]; other site 1007105008980 RPB10 interaction site [polypeptide binding]; other site 1007105008981 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 1007105008982 core dimer interface [polypeptide binding]; other site 1007105008983 peripheral dimer interface [polypeptide binding]; other site 1007105008984 L10 interface [polypeptide binding]; other site 1007105008985 L11 interface [polypeptide binding]; other site 1007105008986 putative EF-Tu interaction site [polypeptide binding]; other site 1007105008987 putative EF-G interaction site [polypeptide binding]; other site 1007105008988 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 1007105008989 23S rRNA interface [nucleotide binding]; other site 1007105008990 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1007105008991 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 1007105008992 mRNA/rRNA interface [nucleotide binding]; other site 1007105008993 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1007105008994 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 1007105008995 23S rRNA interface [nucleotide binding]; other site 1007105008996 L7/L12 interface [polypeptide binding]; other site 1007105008997 putative thiostrepton binding site; other site 1007105008998 L25 interface [polypeptide binding]; other site 1007105008999 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1007105009000 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1007105009001 putative homodimer interface [polypeptide binding]; other site 1007105009002 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1007105009003 heterodimer interface [polypeptide binding]; other site 1007105009004 homodimer interface [polypeptide binding]; other site 1007105009005 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1007105009006 elongation factor Tu; Reviewed; Region: PRK00049 1007105009007 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1007105009008 G1 box; other site 1007105009009 GEF interaction site [polypeptide binding]; other site 1007105009010 GTP/Mg2+ binding site [chemical binding]; other site 1007105009011 Switch I region; other site 1007105009012 G2 box; other site 1007105009013 G3 box; other site 1007105009014 Switch II region; other site 1007105009015 G4 box; other site 1007105009016 G5 box; other site 1007105009017 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 1007105009018 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 1007105009019 Antibiotic Binding Site [chemical binding]; other site 1007105009020 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1007105009021 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1007105009022 ParB-like nuclease domain; Region: ParB; smart00470 1007105009023 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1007105009024 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 1007105009025 P-loop; other site 1007105009026 Magnesium ion binding site [ion binding]; other site 1007105009027 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 1007105009028 Magnesium ion binding site [ion binding]; other site 1007105009029 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1007105009030 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1007105009031 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1007105009032 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1007105009033 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1007105009034 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 1007105009035 DNA-binding site [nucleotide binding]; DNA binding site 1007105009036 RNA-binding motif; other site 1007105009037 methionine aminotransferase; Validated; Region: PRK09082 1007105009038 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 1007105009039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105009040 homodimer interface [polypeptide binding]; other site 1007105009041 catalytic residue [active] 1007105009042 Fic/DOC family; Region: Fic; pfam02661 1007105009043 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1007105009044 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1007105009045 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1007105009046 G1 box; other site 1007105009047 GTP/Mg2+ binding site [chemical binding]; other site 1007105009048 Switch I region; other site 1007105009049 G2 box; other site 1007105009050 Switch II region; other site 1007105009051 G3 box; other site 1007105009052 G4 box; other site 1007105009053 G5 box; other site 1007105009054 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1007105009055 YciI-like protein; Reviewed; Region: PRK12863 1007105009056 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1007105009057 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1007105009058 tetramer interface [polypeptide binding]; other site 1007105009059 heme binding pocket [chemical binding]; other site 1007105009060 NADPH binding site [chemical binding]; other site 1007105009061 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105009062 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105009063 Walker A/P-loop; other site 1007105009064 ATP binding site [chemical binding]; other site 1007105009065 Q-loop/lid; other site 1007105009066 ABC transporter signature motif; other site 1007105009067 Walker B; other site 1007105009068 D-loop; other site 1007105009069 H-loop/switch region; other site 1007105009070 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105009071 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105009072 Walker A/P-loop; other site 1007105009073 ATP binding site [chemical binding]; other site 1007105009074 Q-loop/lid; other site 1007105009075 ABC transporter signature motif; other site 1007105009076 Walker B; other site 1007105009077 D-loop; other site 1007105009078 H-loop/switch region; other site 1007105009079 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105009080 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105009081 TM-ABC transporter signature motif; other site 1007105009082 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105009083 TM-ABC transporter signature motif; other site 1007105009084 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105009085 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 1007105009086 putative ligand binding site [chemical binding]; other site 1007105009087 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105009088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105009089 NAD(P) binding site [chemical binding]; other site 1007105009090 active site 1007105009091 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1007105009092 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1007105009093 active site 1007105009094 oxalacetate binding site [chemical binding]; other site 1007105009095 citrylCoA binding site [chemical binding]; other site 1007105009096 coenzyme A binding site [chemical binding]; other site 1007105009097 catalytic triad [active] 1007105009098 acyl-CoA synthetase; Validated; Region: PRK06188 1007105009099 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105009100 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1007105009101 acyl-activating enzyme (AAE) consensus motif; other site 1007105009102 acyl-activating enzyme (AAE) consensus motif; other site 1007105009103 putative AMP binding site [chemical binding]; other site 1007105009104 putative active site [active] 1007105009105 putative CoA binding site [chemical binding]; other site 1007105009106 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105009107 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105009108 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1007105009109 membrane protein insertase; Provisional; Region: PRK01318 1007105009110 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1007105009111 Ribonuclease P; Region: Ribonuclease_P; cl00457 1007105009112 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1007105009113 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1007105009114 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1007105009115 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 1007105009116 Walker A motif; other site 1007105009117 ATP binding site [chemical binding]; other site 1007105009118 Walker B motif; other site 1007105009119 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 1007105009120 arginine finger; other site 1007105009121 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 1007105009122 DnaA box-binding interface [nucleotide binding]; other site 1007105009123 DNA polymerase III subunit beta; Validated; Region: PRK05643 1007105009124 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 1007105009125 putative DNA binding surface [nucleotide binding]; other site 1007105009126 dimer interface [polypeptide binding]; other site 1007105009127 beta-clamp/clamp loader binding surface; other site 1007105009128 beta-clamp/translesion DNA polymerase binding surface; other site 1007105009129 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1007105009130 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 1007105009131 ATP binding site [chemical binding]; other site 1007105009132 Mg2+ binding site [ion binding]; other site 1007105009133 G-X-G motif; other site 1007105009134 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 1007105009135 anchoring element; other site 1007105009136 dimer interface [polypeptide binding]; other site 1007105009137 ATP binding site [chemical binding]; other site 1007105009138 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 1007105009139 active site 1007105009140 putative metal-binding site [ion binding]; other site 1007105009141 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1007105009142 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 1007105009143 intersubunit interface [polypeptide binding]; other site 1007105009144 active site 1007105009145 Zn2+ binding site [ion binding]; other site 1007105009146 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1007105009147 DctM-like transporters; Region: DctM; pfam06808 1007105009148 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1007105009149 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105009150 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1007105009151 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1007105009152 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 1007105009153 sequence-specific DNA binding site [nucleotide binding]; other site 1007105009154 salt bridge; other site 1007105009155 Cupin domain; Region: Cupin_2; pfam07883 1007105009156 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1007105009157 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1007105009158 DJ-1 family protein; Region: not_thiJ; TIGR01383 1007105009159 conserved cys residue [active] 1007105009160 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1007105009161 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1007105009162 oligomer interface [polypeptide binding]; other site 1007105009163 metal binding site [ion binding]; metal-binding site 1007105009164 metal binding site [ion binding]; metal-binding site 1007105009165 putative Cl binding site [ion binding]; other site 1007105009166 aspartate ring; other site 1007105009167 basic sphincter; other site 1007105009168 hydrophobic gate; other site 1007105009169 periplasmic entrance; other site 1007105009170 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1007105009171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105009172 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1007105009173 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1007105009174 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1007105009175 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1007105009176 NAD(P) binding site [chemical binding]; other site 1007105009177 substrate binding site [chemical binding]; other site 1007105009178 dimer interface [polypeptide binding]; other site 1007105009179 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1007105009180 AlkA N-terminal domain; Region: AlkA_N; smart01009 1007105009181 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1007105009182 endonuclease III; Region: ENDO3c; smart00478 1007105009183 minor groove reading motif; other site 1007105009184 helix-hairpin-helix signature motif; other site 1007105009185 substrate binding pocket [chemical binding]; other site 1007105009186 active site 1007105009187 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1007105009188 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1007105009189 glutathione S-transferase; Provisional; Region: PRK15113 1007105009190 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 1007105009191 C-terminal domain interface [polypeptide binding]; other site 1007105009192 GSH binding site (G-site) [chemical binding]; other site 1007105009193 dimer interface [polypeptide binding]; other site 1007105009194 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1007105009195 N-terminal domain interface [polypeptide binding]; other site 1007105009196 putative dimer interface [polypeptide binding]; other site 1007105009197 putative substrate binding pocket (H-site) [chemical binding]; other site 1007105009198 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1007105009199 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 1007105009200 metal-binding site [ion binding] 1007105009201 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1007105009202 active site 1007105009203 SAM binding site [chemical binding]; other site 1007105009204 homodimer interface [polypeptide binding]; other site 1007105009205 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 1007105009206 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1007105009207 [4Fe-4S] binding site [ion binding]; other site 1007105009208 molybdopterin cofactor binding site; other site 1007105009209 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 1007105009210 molybdopterin cofactor binding site; other site 1007105009211 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1007105009212 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1007105009213 [2Fe-2S] cluster binding site [ion binding]; other site 1007105009214 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1007105009215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105009216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105009217 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1007105009218 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1007105009219 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1007105009220 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1007105009221 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1007105009222 Walker A/P-loop; other site 1007105009223 ATP binding site [chemical binding]; other site 1007105009224 Q-loop/lid; other site 1007105009225 ABC transporter signature motif; other site 1007105009226 Walker B; other site 1007105009227 D-loop; other site 1007105009228 H-loop/switch region; other site 1007105009229 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105009230 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 1007105009231 dimer interface [polypeptide binding]; other site 1007105009232 conserved gate region; other site 1007105009233 putative PBP binding loops; other site 1007105009234 ABC-ATPase subunit interface; other site 1007105009235 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1007105009236 NMT1-like family; Region: NMT1_2; pfam13379 1007105009237 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1007105009238 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1007105009239 active site 1007105009240 DNA binding site [nucleotide binding] 1007105009241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1007105009242 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 1007105009243 substrate binding pocket [chemical binding]; other site 1007105009244 membrane-bound complex binding site; other site 1007105009245 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105009246 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 1007105009247 dimer interface [polypeptide binding]; other site 1007105009248 conserved gate region; other site 1007105009249 putative PBP binding loops; other site 1007105009250 ABC-ATPase subunit interface; other site 1007105009251 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1007105009252 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1007105009253 MOSC domain; Region: MOSC; pfam03473 1007105009254 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1007105009255 EamA-like transporter family; Region: EamA; pfam00892 1007105009256 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1007105009257 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 1007105009258 inhibitor-cofactor binding pocket; inhibition site 1007105009259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105009260 catalytic residue [active] 1007105009261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105009262 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1007105009263 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1007105009264 active site 1007105009265 metal binding site [ion binding]; metal-binding site 1007105009266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105009267 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1007105009268 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105009269 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1007105009270 active site 1007105009271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105009272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105009273 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1007105009274 putative effector binding pocket; other site 1007105009275 dimerization interface [polypeptide binding]; other site 1007105009276 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105009277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105009278 DNA-binding site [nucleotide binding]; DNA binding site 1007105009279 FCD domain; Region: FCD; pfam07729 1007105009280 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1007105009281 DctM-like transporters; Region: DctM; pfam06808 1007105009282 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105009283 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105009284 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105009285 dihydropyrimidinase; Provisional; Region: PRK13404 1007105009286 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1007105009287 tetramer interface [polypeptide binding]; other site 1007105009288 active site 1007105009289 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 1007105009290 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105009291 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 1007105009292 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 1007105009293 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1007105009294 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 1007105009295 catalytic loop [active] 1007105009296 iron binding site [ion binding]; other site 1007105009297 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1007105009298 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1007105009299 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1007105009300 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1007105009301 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1007105009302 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1007105009303 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1007105009304 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1007105009305 guanine deaminase; Provisional; Region: PRK09228 1007105009306 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1007105009307 active site 1007105009308 allantoicase; Provisional; Region: PRK13257 1007105009309 Allantoicase repeat; Region: Allantoicase; pfam03561 1007105009310 Allantoicase repeat; Region: Allantoicase; pfam03561 1007105009311 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1007105009312 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1007105009313 active site 1007105009314 catalytic site [active] 1007105009315 tetramer interface [polypeptide binding]; other site 1007105009316 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1007105009317 active site 1007105009318 homotetramer interface [polypeptide binding]; other site 1007105009319 Predicted membrane protein [Function unknown]; Region: COG3748 1007105009320 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1007105009321 Cytochrome c; Region: Cytochrom_C; pfam00034 1007105009322 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1007105009323 aromatic arch; other site 1007105009324 DCoH dimer interaction site [polypeptide binding]; other site 1007105009325 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1007105009326 DCoH tetramer interaction site [polypeptide binding]; other site 1007105009327 substrate binding site [chemical binding]; other site 1007105009328 Predicted permeases [General function prediction only]; Region: COG0679 1007105009329 AMP nucleosidase; Provisional; Region: PRK08292 1007105009330 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1007105009331 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1007105009332 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1007105009333 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105009334 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105009335 DctM-like transporters; Region: DctM; pfam06808 1007105009336 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105009337 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1007105009338 Proteins containing SET domain [General function prediction only]; Region: COG2940 1007105009339 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1007105009340 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1007105009341 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105009342 PYR/PP interface [polypeptide binding]; other site 1007105009343 dimer interface [polypeptide binding]; other site 1007105009344 TPP binding site [chemical binding]; other site 1007105009345 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; cd00368 1007105009346 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 1007105009347 TPP-binding site [chemical binding]; other site 1007105009348 dimer interface [polypeptide binding]; other site 1007105009349 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1007105009350 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1007105009351 dimer interface [polypeptide binding]; other site 1007105009352 TPP-binding site [chemical binding]; other site 1007105009353 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105009354 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1007105009355 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 1007105009356 putative DNA binding site [nucleotide binding]; other site 1007105009357 putative Zn2+ binding site [ion binding]; other site 1007105009358 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105009359 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105009360 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105009361 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105009362 DctM-like transporters; Region: DctM; pfam06808 1007105009363 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105009364 DNA topoisomerase III; Validated; Region: PRK08173 1007105009365 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1007105009366 active site 1007105009367 putative interdomain interaction site [polypeptide binding]; other site 1007105009368 putative metal-binding site [ion binding]; other site 1007105009369 putative nucleotide binding site [chemical binding]; other site 1007105009370 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 1007105009371 domain I; other site 1007105009372 DNA binding groove [nucleotide binding] 1007105009373 phosphate binding site [ion binding]; other site 1007105009374 domain II; other site 1007105009375 domain III; other site 1007105009376 nucleotide binding site [chemical binding]; other site 1007105009377 catalytic site [active] 1007105009378 domain IV; other site 1007105009379 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1007105009380 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1007105009381 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 1007105009382 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1007105009383 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1007105009384 active site 1007105009385 HIGH motif; other site 1007105009386 nucleotide binding site [chemical binding]; other site 1007105009387 active site 1007105009388 KMSKS motif; other site 1007105009389 Protein of unknown function (DUF494); Region: DUF494; pfam04361 1007105009390 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1007105009391 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105009392 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105009393 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1007105009394 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 1007105009395 carboxyltransferase (CT) interaction site; other site 1007105009396 biotinylation site [posttranslational modification]; other site 1007105009397 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1007105009398 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1007105009399 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 1007105009400 dimer interface [polypeptide binding]; other site 1007105009401 active site 1007105009402 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1007105009403 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1007105009404 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1007105009405 isovaleryl-CoA dehydrogenase; Region: PLN02519 1007105009406 substrate binding site [chemical binding]; other site 1007105009407 FAD binding site [chemical binding]; other site 1007105009408 catalytic base [active] 1007105009409 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1007105009410 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1007105009411 DNA binding residues [nucleotide binding] 1007105009412 putative dimer interface [polypeptide binding]; other site 1007105009413 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1007105009414 transcriptional regulator NanR; Provisional; Region: PRK03837 1007105009415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105009416 DNA-binding site [nucleotide binding]; DNA binding site 1007105009417 FCD domain; Region: FCD; pfam07729 1007105009418 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105009419 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105009420 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1007105009421 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1007105009422 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1007105009423 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 1007105009424 carboxyltransferase (CT) interaction site; other site 1007105009425 biotinylation site [posttranslational modification]; other site 1007105009426 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1007105009427 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1007105009428 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1007105009429 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1007105009430 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105009431 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105009432 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1007105009433 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105009434 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105009435 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1007105009436 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 1007105009437 membrane-bound complex binding site; other site 1007105009438 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1007105009439 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1007105009440 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105009441 PYR/PP interface [polypeptide binding]; other site 1007105009442 dimer interface [polypeptide binding]; other site 1007105009443 TPP binding site [chemical binding]; other site 1007105009444 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105009445 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1007105009446 TPP-binding site; other site 1007105009447 dimer interface [polypeptide binding]; other site 1007105009448 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105009449 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1007105009450 NAD(P) binding site [chemical binding]; other site 1007105009451 catalytic residues [active] 1007105009452 catalytic residues [active] 1007105009453 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105009454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105009455 DNA-binding site [nucleotide binding]; DNA binding site 1007105009456 FCD domain; Region: FCD; pfam07729 1007105009457 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1007105009458 NMT1-like family; Region: NMT1_2; pfam13379 1007105009459 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1007105009460 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1007105009461 Walker A/P-loop; other site 1007105009462 ATP binding site [chemical binding]; other site 1007105009463 Q-loop/lid; other site 1007105009464 ABC transporter signature motif; other site 1007105009465 Walker B; other site 1007105009466 D-loop; other site 1007105009467 H-loop/switch region; other site 1007105009468 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1007105009469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1007105009470 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1007105009471 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1007105009472 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1007105009473 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 1007105009474 homodimer interface [polypeptide binding]; other site 1007105009475 substrate-cofactor binding pocket; other site 1007105009476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105009477 catalytic residue [active] 1007105009478 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1007105009479 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1007105009480 catalytic residues [active] 1007105009481 hinge region; other site 1007105009482 alpha helical domain; other site 1007105009483 Sporulation related domain; Region: SPOR; pfam05036 1007105009484 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1007105009485 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1007105009486 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1007105009487 active site 1007105009488 HIGH motif; other site 1007105009489 KMSK motif region; other site 1007105009490 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1007105009491 tRNA binding surface [nucleotide binding]; other site 1007105009492 anticodon binding site; other site 1007105009493 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1007105009494 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1007105009495 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1007105009496 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1007105009497 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1007105009498 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 1007105009499 dimer interface [polypeptide binding]; other site 1007105009500 conserved gate region; other site 1007105009501 putative PBP binding loops; other site 1007105009502 ABC-ATPase subunit interface; other site 1007105009503 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 1007105009504 dimer interface [polypeptide binding]; other site 1007105009505 conserved gate region; other site 1007105009506 putative PBP binding loops; other site 1007105009507 ABC-ATPase subunit interface; other site 1007105009508 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1007105009509 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1007105009510 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1007105009511 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1007105009512 Walker A/P-loop; other site 1007105009513 ATP binding site [chemical binding]; other site 1007105009514 Q-loop/lid; other site 1007105009515 ABC transporter signature motif; other site 1007105009516 Walker B; other site 1007105009517 D-loop; other site 1007105009518 H-loop/switch region; other site 1007105009519 TOBE domain; Region: TOBE_2; pfam08402 1007105009520 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1007105009521 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1007105009522 active site 1007105009523 metal binding site [ion binding]; metal-binding site 1007105009524 hexamer interface [polypeptide binding]; other site 1007105009525 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1007105009526 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1007105009527 DNA binding site [nucleotide binding] 1007105009528 domain linker motif; other site 1007105009529 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1007105009530 2-isopropylmalate synthase; Validated; Region: PRK03739 1007105009531 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1007105009532 active site 1007105009533 catalytic residues [active] 1007105009534 metal binding site [ion binding]; metal-binding site 1007105009535 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1007105009536 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1007105009537 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1007105009538 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1007105009539 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1007105009540 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1007105009541 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1007105009542 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1007105009543 heme binding site [chemical binding]; other site 1007105009544 ferroxidase pore; other site 1007105009545 ferroxidase diiron center [ion binding]; other site 1007105009546 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1007105009547 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1007105009548 G1 box; other site 1007105009549 putative GEF interaction site [polypeptide binding]; other site 1007105009550 GTP/Mg2+ binding site [chemical binding]; other site 1007105009551 Switch I region; other site 1007105009552 G2 box; other site 1007105009553 G3 box; other site 1007105009554 Switch II region; other site 1007105009555 G4 box; other site 1007105009556 G5 box; other site 1007105009557 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 1007105009558 LysE type translocator; Region: LysE; cl00565 1007105009559 helicase 45; Provisional; Region: PTZ00424 1007105009560 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 1007105009561 ATP binding site [chemical binding]; other site 1007105009562 Mg++ binding site [ion binding]; other site 1007105009563 motif III; other site 1007105009564 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 1007105009565 nucleotide binding region [chemical binding]; other site 1007105009566 ATP-binding site [chemical binding]; other site 1007105009567 LemA family; Region: LemA; pfam04011 1007105009568 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1007105009569 Repair protein; Region: Repair_PSII; pfam04536 1007105009570 Repair protein; Region: Repair_PSII; pfam04536 1007105009571 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1007105009572 G1 box; other site 1007105009573 GTP/Mg2+ binding site [chemical binding]; other site 1007105009574 G2 box; other site 1007105009575 Switch I region; other site 1007105009576 G3 box; other site 1007105009577 Switch II region; other site 1007105009578 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1007105009579 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1007105009580 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1007105009581 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1007105009582 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1007105009583 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1007105009584 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1007105009585 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1007105009586 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 1007105009587 dimer interface [polypeptide binding]; other site 1007105009588 ADP-ribose binding site [chemical binding]; other site 1007105009589 active site 1007105009590 nudix motif; other site 1007105009591 metal binding site [ion binding]; metal-binding site 1007105009592 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1007105009593 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1007105009594 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 1007105009595 motif II; other site 1007105009596 EamA-like transporter family; Region: EamA; pfam00892 1007105009597 EamA-like transporter family; Region: EamA; pfam00892 1007105009598 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1007105009599 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1007105009600 putative ligand binding site [chemical binding]; other site 1007105009601 NAD binding site [chemical binding]; other site 1007105009602 dimerization interface [polypeptide binding]; other site 1007105009603 catalytic site [active] 1007105009604 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105009605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105009606 DNA-binding site [nucleotide binding]; DNA binding site 1007105009607 FCD domain; Region: FCD; pfam07729 1007105009608 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1007105009609 Amidase; Region: Amidase; pfam01425 1007105009610 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105009611 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1007105009612 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105009613 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1007105009614 TM-ABC transporter signature motif; other site 1007105009615 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1007105009616 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1007105009617 TM-ABC transporter signature motif; other site 1007105009618 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1007105009619 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1007105009620 Walker A/P-loop; other site 1007105009621 ATP binding site [chemical binding]; other site 1007105009622 Q-loop/lid; other site 1007105009623 ABC transporter signature motif; other site 1007105009624 Walker B; other site 1007105009625 D-loop; other site 1007105009626 H-loop/switch region; other site 1007105009627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1007105009628 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1007105009629 Walker A/P-loop; other site 1007105009630 ATP binding site [chemical binding]; other site 1007105009631 Q-loop/lid; other site 1007105009632 ABC transporter signature motif; other site 1007105009633 Walker B; other site 1007105009634 D-loop; other site 1007105009635 H-loop/switch region; other site 1007105009636 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1007105009637 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 1007105009638 N-terminal plug; other site 1007105009639 ligand-binding site [chemical binding]; other site 1007105009640 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1007105009641 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1007105009642 Trp docking motif [polypeptide binding]; other site 1007105009643 putative active site [active] 1007105009644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105009645 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105009646 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1007105009647 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1007105009648 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1007105009649 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1007105009650 C-terminal domain interface [polypeptide binding]; other site 1007105009651 putative GSH binding site (G-site) [chemical binding]; other site 1007105009652 dimer interface [polypeptide binding]; other site 1007105009653 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1007105009654 dimer interface [polypeptide binding]; other site 1007105009655 N-terminal domain interface [polypeptide binding]; other site 1007105009656 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1007105009657 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1007105009658 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 1007105009659 Qi binding site; other site 1007105009660 intrachain domain interface; other site 1007105009661 interchain domain interface [polypeptide binding]; other site 1007105009662 heme bH binding site [chemical binding]; other site 1007105009663 heme bL binding site [chemical binding]; other site 1007105009664 Qo binding site; other site 1007105009665 interchain domain interface [polypeptide binding]; other site 1007105009666 intrachain domain interface; other site 1007105009667 Qi binding site; other site 1007105009668 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1007105009669 Qo binding site; other site 1007105009670 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1007105009671 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 1007105009672 [2Fe-2S] cluster binding site [ion binding]; other site 1007105009673 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1007105009674 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1007105009675 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1007105009676 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1007105009677 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1007105009678 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 1007105009679 protein binding site [polypeptide binding]; other site 1007105009680 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1007105009681 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1007105009682 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1007105009683 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1007105009684 nucleotide binding site/active site [active] 1007105009685 HIT family signature motif; other site 1007105009686 catalytic residue [active] 1007105009687 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 1007105009688 metal binding site [ion binding]; metal-binding site 1007105009689 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1007105009690 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 1007105009691 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1007105009692 substrate binding site [chemical binding]; other site 1007105009693 glutamase interaction surface [polypeptide binding]; other site 1007105009694 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 1007105009695 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1007105009696 catalytic residues [active] 1007105009697 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1007105009698 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1007105009699 putative active site [active] 1007105009700 oxyanion strand; other site 1007105009701 catalytic triad [active] 1007105009702 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1007105009703 putative active site pocket [active] 1007105009704 4-fold oligomerization interface [polypeptide binding]; other site 1007105009705 metal binding residues [ion binding]; metal-binding site 1007105009706 3-fold/trimer interface [polypeptide binding]; other site 1007105009707 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 1007105009708 histidinol dehydrogenase; Region: hisD; TIGR00069 1007105009709 NAD binding site [chemical binding]; other site 1007105009710 dimerization interface [polypeptide binding]; other site 1007105009711 product binding site; other site 1007105009712 substrate binding site [chemical binding]; other site 1007105009713 zinc binding site [ion binding]; other site 1007105009714 catalytic residues [active] 1007105009715 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1007105009716 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1007105009717 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1007105009718 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 1007105009719 hinge; other site 1007105009720 active site 1007105009721 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1007105009722 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1007105009723 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1007105009724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105009725 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1007105009726 Walker A/P-loop; other site 1007105009727 ATP binding site [chemical binding]; other site 1007105009728 Q-loop/lid; other site 1007105009729 ABC transporter signature motif; other site 1007105009730 Walker B; other site 1007105009731 D-loop; other site 1007105009732 H-loop/switch region; other site 1007105009733 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1007105009734 VacJ like lipoprotein; Region: VacJ; cl01073 1007105009735 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1007105009736 mce related protein; Region: MCE; pfam02470 1007105009737 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1007105009738 Permease; Region: Permease; pfam02405 1007105009739 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1007105009740 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1007105009741 Walker A/P-loop; other site 1007105009742 ATP binding site [chemical binding]; other site 1007105009743 Q-loop/lid; other site 1007105009744 ABC transporter signature motif; other site 1007105009745 Walker B; other site 1007105009746 D-loop; other site 1007105009747 H-loop/switch region; other site 1007105009748 YcfA-like protein; Region: YcfA; pfam07927 1007105009749 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1007105009750 Predicted transcriptional regulator [Transcription]; Region: COG2944 1007105009751 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1007105009752 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1007105009753 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1007105009754 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 1007105009755 dimer interface [polypeptide binding]; other site 1007105009756 active site 1007105009757 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1007105009758 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 1007105009759 active site 1007105009760 FMN binding site [chemical binding]; other site 1007105009761 substrate binding site [chemical binding]; other site 1007105009762 3Fe-4S cluster binding site [ion binding]; other site 1007105009763 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 1007105009764 domain interface; other site 1007105009765 Cupin domain; Region: Cupin_2; cl17218 1007105009766 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1007105009767 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1007105009768 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1007105009769 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 1007105009770 putative C-terminal domain interface [polypeptide binding]; other site 1007105009771 putative GSH binding site (G-site) [chemical binding]; other site 1007105009772 putative dimer interface [polypeptide binding]; other site 1007105009773 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1007105009774 dimer interface [polypeptide binding]; other site 1007105009775 N-terminal domain interface [polypeptide binding]; other site 1007105009776 putative substrate binding pocket (H-site) [chemical binding]; other site 1007105009777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105009778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105009779 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1007105009780 dimerization interface [polypeptide binding]; other site 1007105009781 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1007105009782 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1007105009783 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1007105009784 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1007105009785 NADP binding site [chemical binding]; other site 1007105009786 dimer interface [polypeptide binding]; other site 1007105009787 Sm and related proteins; Region: Sm_like; cl00259 1007105009788 hexamer interface [polypeptide binding]; other site 1007105009789 Sm1 motif; other site 1007105009790 heptamer interface [polypeptide binding]; other site 1007105009791 RNA binding site [nucleotide binding]; other site 1007105009792 Sm2 motif; other site 1007105009793 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1007105009794 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105009795 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1007105009796 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105009797 Beta-lactamase; Region: Beta-lactamase; pfam00144 1007105009798 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1007105009799 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105009800 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105009801 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105009802 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 1007105009803 substrate binding site [chemical binding]; other site 1007105009804 oxyanion hole (OAH) forming residues; other site 1007105009805 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1007105009806 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 1007105009807 dimer interface [polypeptide binding]; other site 1007105009808 active site 1007105009809 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1007105009810 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105009811 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1007105009812 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1007105009813 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1007105009814 NADP binding site [chemical binding]; other site 1007105009815 active site 1007105009816 putative substrate binding site [chemical binding]; other site 1007105009817 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1007105009818 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 1007105009819 active site 1007105009820 dimer interface [polypeptide binding]; other site 1007105009821 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 1007105009822 dimer interface [polypeptide binding]; other site 1007105009823 active site 1007105009824 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 1007105009825 rRNA binding site [nucleotide binding]; other site 1007105009826 predicted 30S ribosome binding site; other site 1007105009827 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105009828 EamA-like transporter family; Region: EamA; pfam00892 1007105009829 EamA-like transporter family; Region: EamA; pfam00892 1007105009830 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1007105009831 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1007105009832 NAD binding site [chemical binding]; other site 1007105009833 substrate binding site [chemical binding]; other site 1007105009834 homodimer interface [polypeptide binding]; other site 1007105009835 active site 1007105009836 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1007105009837 O-Antigen ligase; Region: Wzy_C; pfam04932 1007105009838 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009839 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1007105009840 putative ADP-binding pocket [chemical binding]; other site 1007105009841 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1007105009842 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1007105009843 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1007105009844 Substrate binding site; other site 1007105009845 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1007105009846 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 1007105009847 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009848 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1007105009849 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1007105009850 NADP-binding site; other site 1007105009851 homotetramer interface [polypeptide binding]; other site 1007105009852 substrate binding site [chemical binding]; other site 1007105009853 homodimer interface [polypeptide binding]; other site 1007105009854 active site 1007105009855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105009856 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1007105009857 NAD(P) binding site [chemical binding]; other site 1007105009858 active site 1007105009859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009860 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 1007105009861 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1007105009862 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1007105009863 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1007105009864 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1007105009865 Walker A/P-loop; other site 1007105009866 ATP binding site [chemical binding]; other site 1007105009867 Q-loop/lid; other site 1007105009868 ABC transporter signature motif; other site 1007105009869 Walker B; other site 1007105009870 D-loop; other site 1007105009871 H-loop/switch region; other site 1007105009872 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1007105009873 putative carbohydrate binding site [chemical binding]; other site 1007105009874 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1007105009875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 1007105009876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009877 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 1007105009878 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009879 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 1007105009880 Transposase; Region: HTH_Tnp_1; pfam01527 1007105009881 HTH-like domain; Region: HTH_21; pfam13276 1007105009882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1007105009883 Integrase core domain; Region: rve; pfam00665 1007105009884 Integrase core domain; Region: rve_3; pfam13683 1007105009885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1007105009886 Transposase; Region: HTH_Tnp_1; pfam01527 1007105009887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105009888 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105009889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105009890 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105009891 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105009892 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105009893 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1007105009894 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105009895 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1007105009896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1007105009897 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1007105009898 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1007105009899 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1007105009900 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1007105009901 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1007105009902 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 1007105009903 S-adenosylmethionine binding site [chemical binding]; other site 1007105009904 GtrA-like protein; Region: GtrA; pfam04138 1007105009905 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1007105009906 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1007105009907 Ligand binding site; other site 1007105009908 Putative Catalytic site; other site 1007105009909 DXD motif; other site 1007105009910 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1007105009911 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1007105009912 substrate binding site; other site 1007105009913 tetramer interface; other site 1007105009914 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1007105009915 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1007105009916 NAD binding site [chemical binding]; other site 1007105009917 substrate binding site [chemical binding]; other site 1007105009918 homodimer interface [polypeptide binding]; other site 1007105009919 active site 1007105009920 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1007105009921 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1007105009922 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105009923 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105009924 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 1007105009925 dimerization interface [polypeptide binding]; other site 1007105009926 D-cysteine desulfhydrase; Validated; Region: PRK03910 1007105009927 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1007105009928 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105009929 catalytic residue [active] 1007105009930 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105009931 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1007105009932 active site 1007105009933 Zn binding site [ion binding]; other site 1007105009934 allantoate amidohydrolase; Reviewed; Region: PRK12890 1007105009935 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1007105009936 active site 1007105009937 metal binding site [ion binding]; metal-binding site 1007105009938 dimer interface [polypeptide binding]; other site 1007105009939 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1007105009940 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1007105009941 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105009942 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1007105009943 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1007105009944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105009945 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1007105009946 dimerization interface [polypeptide binding]; other site 1007105009947 substrate binding pocket [chemical binding]; other site 1007105009948 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 1007105009949 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1007105009950 Domain of unknown function DUF108; Region: DUF108; pfam01958 1007105009951 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1007105009952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105009953 NAD(P) binding site [chemical binding]; other site 1007105009954 active site 1007105009955 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1007105009956 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1007105009957 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1007105009958 putative trimer interface [polypeptide binding]; other site 1007105009959 putative CoA binding site [chemical binding]; other site 1007105009960 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1007105009961 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1007105009962 NAD(P) binding site [chemical binding]; other site 1007105009963 homodimer interface [polypeptide binding]; other site 1007105009964 substrate binding site [chemical binding]; other site 1007105009965 active site 1007105009966 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1007105009967 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 1007105009968 inhibitor-cofactor binding pocket; inhibition site 1007105009969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105009970 catalytic residue [active] 1007105009971 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1007105009972 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1007105009973 putative ADP-binding pocket [chemical binding]; other site 1007105009974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1007105009975 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1007105009976 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 1007105009977 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1007105009978 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1007105009979 putative ADP-binding pocket [chemical binding]; other site 1007105009980 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1007105009981 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 1007105009982 active site 1007105009983 dimer interface [polypeptide binding]; other site 1007105009984 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 1007105009985 Ligand Binding Site [chemical binding]; other site 1007105009986 Molecular Tunnel; other site 1007105009987 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1007105009988 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1007105009989 putative ADP-binding pocket [chemical binding]; other site 1007105009990 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1007105009991 colanic acid exporter; Provisional; Region: PRK10459 1007105009992 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1007105009993 tyrosine kinase; Provisional; Region: PRK11519 1007105009994 Chain length determinant protein; Region: Wzz; pfam02706 1007105009995 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1007105009996 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 1007105009997 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1007105009998 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1007105009999 active site 1007105010000 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1007105010001 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1007105010002 SLBB domain; Region: SLBB; pfam10531 1007105010003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105010004 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1007105010005 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 1007105010006 active site 1007105010007 thiolase; Provisional; Region: PRK06158 1007105010008 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1007105010009 active site 1007105010010 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1007105010011 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 1007105010012 substrate binding site [chemical binding]; other site 1007105010013 oxyanion hole (OAH) forming residues; other site 1007105010014 trimer interface [polypeptide binding]; other site 1007105010015 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1007105010016 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105010017 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1007105010018 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105010019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010020 DNA-binding site [nucleotide binding]; DNA binding site 1007105010021 FCD domain; Region: FCD; pfam07729 1007105010022 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105010023 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105010024 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1007105010025 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1007105010026 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1007105010027 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 1007105010028 carboxyltransferase (CT) interaction site; other site 1007105010029 biotinylation site [posttranslational modification]; other site 1007105010030 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1007105010031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105010032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1007105010033 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1007105010034 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1007105010035 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1007105010036 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1007105010037 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 1007105010038 trimer interface [polypeptide binding]; other site 1007105010039 putative metal binding site [ion binding]; other site 1007105010040 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105010041 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1007105010042 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1007105010043 putative active site [active] 1007105010044 BCCT family transporter; Region: BCCT; cl00569 1007105010045 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1007105010046 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1007105010047 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 1007105010048 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 1007105010049 dimer interface [polypeptide binding]; other site 1007105010050 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1007105010051 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1007105010052 Na binding site [ion binding]; other site 1007105010053 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1007105010054 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 1007105010055 active site 1007105010056 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105010057 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105010058 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105010059 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 1007105010060 substrate binding site [chemical binding]; other site 1007105010061 oxyanion hole (OAH) forming residues; other site 1007105010062 trimer interface [polypeptide binding]; other site 1007105010063 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1007105010064 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105010065 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105010066 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105010067 DctM-like transporters; Region: DctM; pfam06808 1007105010068 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105010069 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105010070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010071 DNA-binding site [nucleotide binding]; DNA binding site 1007105010072 FCD domain; Region: FCD; pfam07729 1007105010073 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 1007105010074 active site 1007105010075 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1007105010076 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1007105010077 active site 1007105010078 tetramer interface; other site 1007105010079 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1007105010080 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1007105010081 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1007105010082 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1007105010083 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1007105010084 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1007105010085 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1007105010086 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1007105010087 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1007105010088 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1007105010089 homodimer interface [polypeptide binding]; other site 1007105010090 substrate-cofactor binding pocket; other site 1007105010091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105010092 catalytic residue [active] 1007105010093 Protein of unknown function (DUF493); Region: DUF493; cl01102 1007105010094 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1007105010095 enoyl-CoA hydratase; Provisional; Region: PRK05995 1007105010096 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 1007105010097 substrate binding site [chemical binding]; other site 1007105010098 oxyanion hole (OAH) forming residues; other site 1007105010099 trimer interface [polypeptide binding]; other site 1007105010100 lipoyl synthase; Provisional; Region: PRK05481 1007105010101 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 1007105010102 FeS/SAM binding site; other site 1007105010103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105010104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010105 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 1007105010106 dimerization interface [polypeptide binding]; other site 1007105010107 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1007105010108 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1007105010109 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1007105010110 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 1007105010111 dimer interface [polypeptide binding]; other site 1007105010112 conserved gate region; other site 1007105010113 putative PBP binding loops; other site 1007105010114 ABC-ATPase subunit interface; other site 1007105010115 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1007105010116 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 1007105010117 dimer interface [polypeptide binding]; other site 1007105010118 conserved gate region; other site 1007105010119 putative PBP binding loops; other site 1007105010120 ABC-ATPase subunit interface; other site 1007105010121 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1007105010122 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105010123 Walker A/P-loop; other site 1007105010124 ATP binding site [chemical binding]; other site 1007105010125 Q-loop/lid; other site 1007105010126 ABC transporter signature motif; other site 1007105010127 Walker B; other site 1007105010128 D-loop; other site 1007105010129 H-loop/switch region; other site 1007105010130 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105010131 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1007105010132 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105010133 Walker A/P-loop; other site 1007105010134 ATP binding site [chemical binding]; other site 1007105010135 Q-loop/lid; other site 1007105010136 ABC transporter signature motif; other site 1007105010137 Walker B; other site 1007105010138 D-loop; other site 1007105010139 H-loop/switch region; other site 1007105010140 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1007105010141 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1007105010142 metal binding site [ion binding]; metal-binding site 1007105010143 dimer interface [polypeptide binding]; other site 1007105010144 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1007105010145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010146 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1007105010147 dimerization interface [polypeptide binding]; other site 1007105010148 substrate binding pocket [chemical binding]; other site 1007105010149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105010150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1007105010151 NAD(P) binding site [chemical binding]; other site 1007105010152 active site 1007105010153 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 1007105010154 TPP-binding site [chemical binding]; other site 1007105010155 dimer interface [polypeptide binding]; other site 1007105010156 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1007105010157 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 1007105010158 PYR/PP interface [polypeptide binding]; other site 1007105010159 dimer interface [polypeptide binding]; other site 1007105010160 TPP binding site [chemical binding]; other site 1007105010161 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105010162 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105010163 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105010164 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105010165 DctM-like transporters; Region: DctM; pfam06808 1007105010166 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105010167 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105010168 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105010169 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1007105010170 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1007105010171 active site 1007105010172 NAD binding site [chemical binding]; other site 1007105010173 metal binding site [ion binding]; metal-binding site 1007105010174 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1007105010175 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1007105010176 NAD(P) binding site [chemical binding]; other site 1007105010177 catalytic residues [active] 1007105010178 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1007105010179 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1007105010180 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1007105010181 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 1007105010182 ligand binding site [chemical binding]; other site 1007105010183 flexible hinge region; other site 1007105010184 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 1007105010185 putative switch regulator; other site 1007105010186 non-specific DNA interactions [nucleotide binding]; other site 1007105010187 DNA binding site [nucleotide binding] 1007105010188 sequence specific DNA binding site [nucleotide binding]; other site 1007105010189 putative cAMP binding site [chemical binding]; other site 1007105010190 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1007105010191 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1007105010192 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1007105010193 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1007105010194 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1007105010195 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1007105010196 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1007105010197 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1007105010198 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 1007105010199 dimer interface [polypeptide binding]; other site 1007105010200 conserved gate region; other site 1007105010201 putative PBP binding loops; other site 1007105010202 ABC-ATPase subunit interface; other site 1007105010203 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1007105010204 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 1007105010205 dimer interface [polypeptide binding]; other site 1007105010206 conserved gate region; other site 1007105010207 putative PBP binding loops; other site 1007105010208 ABC-ATPase subunit interface; other site 1007105010209 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1007105010210 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105010211 Walker A/P-loop; other site 1007105010212 ATP binding site [chemical binding]; other site 1007105010213 Q-loop/lid; other site 1007105010214 ABC transporter signature motif; other site 1007105010215 Walker B; other site 1007105010216 D-loop; other site 1007105010217 H-loop/switch region; other site 1007105010218 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1007105010219 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1007105010220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1007105010221 Walker A/P-loop; other site 1007105010222 ATP binding site [chemical binding]; other site 1007105010223 Q-loop/lid; other site 1007105010224 ABC transporter signature motif; other site 1007105010225 Walker B; other site 1007105010226 D-loop; other site 1007105010227 H-loop/switch region; other site 1007105010228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1007105010229 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1007105010230 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1007105010231 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1007105010232 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1007105010233 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1007105010234 putative active site [active] 1007105010235 hypothetical protein; Provisional; Region: PRK07483 1007105010236 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 1007105010237 inhibitor-cofactor binding pocket; inhibition site 1007105010238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105010239 catalytic residue [active] 1007105010240 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1007105010241 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1007105010242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105010243 Coenzyme A binding pocket [chemical binding]; other site 1007105010244 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1007105010245 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1007105010246 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 1007105010247 Walker A motif; other site 1007105010248 ATP binding site [chemical binding]; other site 1007105010249 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1007105010250 Walker B motif; other site 1007105010251 arginine finger; other site 1007105010252 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1007105010253 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 1007105010254 active site 1007105010255 HslU subunit interaction site [polypeptide binding]; other site 1007105010256 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105010257 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105010258 DctM-like transporters; Region: DctM; pfam06808 1007105010259 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1007105010260 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1007105010261 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1007105010262 tetramer interface [polypeptide binding]; other site 1007105010263 active site 1007105010264 Mg2+/Mn2+ binding site [ion binding]; other site 1007105010265 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105010266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010267 DNA-binding site [nucleotide binding]; DNA binding site 1007105010268 FCD domain; Region: FCD; pfam07729 1007105010269 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1007105010270 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105010271 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1007105010272 CoenzymeA binding site [chemical binding]; other site 1007105010273 subunit interaction site [polypeptide binding]; other site 1007105010274 PHB binding site; other site 1007105010275 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1007105010276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105010277 Walker A/P-loop; other site 1007105010278 ATP binding site [chemical binding]; other site 1007105010279 Q-loop/lid; other site 1007105010280 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105010281 ABC transporter; Region: ABC_tran_2; pfam12848 1007105010282 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1007105010283 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 1007105010284 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1007105010285 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1007105010286 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 1007105010287 P-loop, Walker A motif; other site 1007105010288 Base recognition motif; other site 1007105010289 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1007105010290 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1007105010291 metal binding site 2 [ion binding]; metal-binding site 1007105010292 putative DNA binding helix; other site 1007105010293 metal binding site 1 [ion binding]; metal-binding site 1007105010294 dimer interface [polypeptide binding]; other site 1007105010295 structural Zn2+ binding site [ion binding]; other site 1007105010296 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1007105010297 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1007105010298 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1007105010299 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 1007105010300 ABC-ATPase subunit interface; other site 1007105010301 dimer interface [polypeptide binding]; other site 1007105010302 putative PBP binding regions; other site 1007105010303 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 1007105010304 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1007105010305 metal binding site [ion binding]; metal-binding site 1007105010306 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1007105010307 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 1007105010308 active site 1007105010309 DNA binding site [nucleotide binding] 1007105010310 Int/Topo IB signature motif; other site 1007105010311 Protein of unknown function, DUF484; Region: DUF484; cl17449 1007105010312 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1007105010313 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1007105010314 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1007105010315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105010316 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1007105010317 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1007105010318 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1007105010319 preprotein translocase subunit SecB; Validated; Region: PRK05751 1007105010320 SecA binding site; other site 1007105010321 Preprotein binding site; other site 1007105010322 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 1007105010323 GSH binding site [chemical binding]; other site 1007105010324 catalytic residues [active] 1007105010325 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 1007105010326 active site residue [active] 1007105010327 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 1007105010328 catalytic core [active] 1007105010329 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 1007105010330 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1007105010331 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1007105010332 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105010333 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1007105010334 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1007105010335 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 1007105010336 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1007105010337 Catalytic dyad [active] 1007105010338 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1007105010339 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 1007105010340 motif II; other site 1007105010341 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 1007105010342 feedback inhibition sensing region; other site 1007105010343 homohexameric interface [polypeptide binding]; other site 1007105010344 nucleotide binding site [chemical binding]; other site 1007105010345 N-acetyl-L-glutamate binding site [chemical binding]; other site 1007105010346 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 1007105010347 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105010348 catalytic residues [active] 1007105010349 outer membrane lipoprotein; Provisional; Region: PRK11023 1007105010350 BON domain; Region: BON; pfam04972 1007105010351 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 1007105010352 dimer interface [polypeptide binding]; other site 1007105010353 active site 1007105010354 hypothetical protein; Reviewed; Region: PRK12497 1007105010355 Predicted methyltransferases [General function prediction only]; Region: COG0313 1007105010356 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1007105010357 putative SAM binding site [chemical binding]; other site 1007105010358 putative homodimer interface [polypeptide binding]; other site 1007105010359 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1007105010360 rare lipoprotein A; Region: rlpA; TIGR00413 1007105010361 Sporulation related domain; Region: SPOR; pfam05036 1007105010362 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1007105010363 shikimate kinase; Reviewed; Region: aroK; PRK00131 1007105010364 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1007105010365 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1007105010366 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 1007105010367 Hpr binding site; other site 1007105010368 active site 1007105010369 homohexamer subunit interaction site [polypeptide binding]; other site 1007105010370 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 1007105010371 active site 1007105010372 phosphorylation site [posttranslational modification] 1007105010373 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 1007105010374 30S subunit binding site; other site 1007105010375 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1007105010376 Walker A/P-loop; other site 1007105010377 ATP binding site [chemical binding]; other site 1007105010378 ABC transporter; Region: ABC_tran; pfam00005 1007105010379 Q-loop/lid; other site 1007105010380 ABC transporter signature motif; other site 1007105010381 Walker B; other site 1007105010382 D-loop; other site 1007105010383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1007105010384 OstA-like protein; Region: OstA; pfam03968 1007105010385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1007105010386 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1007105010387 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1007105010388 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 1007105010389 active site 1007105010390 motif I; other site 1007105010391 motif II; other site 1007105010392 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 1007105010393 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1007105010394 putative active site [active] 1007105010395 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1007105010396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1007105010397 active site 1007105010398 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1007105010399 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105010400 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105010401 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105010402 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1007105010403 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1007105010404 Cysteine-rich domain; Region: CCG; pfam02754 1007105010405 Cysteine-rich domain; Region: CCG; pfam02754 1007105010406 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1007105010407 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1007105010408 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1007105010409 Walker A/P-loop; other site 1007105010410 ATP binding site [chemical binding]; other site 1007105010411 Q-loop/lid; other site 1007105010412 ABC transporter signature motif; other site 1007105010413 Walker B; other site 1007105010414 D-loop; other site 1007105010415 H-loop/switch region; other site 1007105010416 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105010417 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 1007105010418 dimer interface [polypeptide binding]; other site 1007105010419 conserved gate region; other site 1007105010420 putative PBP binding loops; other site 1007105010421 ABC-ATPase subunit interface; other site 1007105010422 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1007105010423 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 1007105010424 dimer interface [polypeptide binding]; other site 1007105010425 conserved gate region; other site 1007105010426 putative PBP binding loops; other site 1007105010427 ABC-ATPase subunit interface; other site 1007105010428 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1007105010429 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 1007105010430 substrate binding pocket [chemical binding]; other site 1007105010431 membrane-bound complex binding site; other site 1007105010432 hinge residues; other site 1007105010433 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1007105010434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010435 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 1007105010436 dimerization interface [polypeptide binding]; other site 1007105010437 Predicted membrane protein [Function unknown]; Region: COG1238 1007105010438 threonine dehydratase; Reviewed; Region: PRK09224 1007105010439 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1007105010440 tetramer interface [polypeptide binding]; other site 1007105010441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105010442 catalytic residue [active] 1007105010443 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1007105010444 putative Ile/Val binding site [chemical binding]; other site 1007105010445 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1007105010446 putative Ile/Val binding site [chemical binding]; other site 1007105010447 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1007105010448 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1007105010449 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1007105010450 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1007105010451 dimerization interface [polypeptide binding]; other site 1007105010452 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1007105010453 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1007105010454 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 1007105010455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105010456 putative substrate translocation pore; other site 1007105010457 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1007105010458 alanine racemase; Reviewed; Region: alr; PRK00053 1007105010459 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1007105010460 catalytic residue [active] 1007105010461 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1007105010462 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 1007105010463 ATP binding site [chemical binding]; other site 1007105010464 Mg2+ binding site [ion binding]; other site 1007105010465 G-X-G motif; other site 1007105010466 xanthine permease; Region: pbuX; TIGR03173 1007105010467 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1007105010468 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1007105010469 Condensation domain; Region: Condensation; pfam00668 1007105010470 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1007105010471 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1007105010472 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1007105010473 acyl-activating enzyme (AAE) consensus motif; other site 1007105010474 AMP binding site [chemical binding]; other site 1007105010475 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105010476 Condensation domain; Region: Condensation; pfam00668 1007105010477 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105010478 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1007105010479 Condensation domain; Region: Condensation; pfam00668 1007105010480 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1007105010481 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1007105010482 acyl-activating enzyme (AAE) consensus motif; other site 1007105010483 AMP binding site [chemical binding]; other site 1007105010484 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105010485 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1007105010486 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1007105010487 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1007105010488 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1007105010489 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1007105010490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1007105010491 Walker A/P-loop; other site 1007105010492 ATP binding site [chemical binding]; other site 1007105010493 Q-loop/lid; other site 1007105010494 ABC transporter signature motif; other site 1007105010495 Walker B; other site 1007105010496 D-loop; other site 1007105010497 H-loop/switch region; other site 1007105010498 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1007105010499 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 1007105010500 ligand binding site [chemical binding]; other site 1007105010501 acyl-CoA synthetase; Validated; Region: PRK05850 1007105010502 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1007105010503 acyl-activating enzyme (AAE) consensus motif; other site 1007105010504 active site 1007105010505 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1007105010506 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1007105010507 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 1007105010508 active site 1007105010509 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1007105010510 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1007105010511 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105010512 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1007105010513 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 1007105010514 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1007105010515 catalytic residue [active] 1007105010516 Condensation domain; Region: Condensation; pfam00668 1007105010517 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1007105010518 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1007105010519 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1007105010520 acyl-activating enzyme (AAE) consensus motif; other site 1007105010521 AMP binding site [chemical binding]; other site 1007105010522 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1007105010523 Condensation domain; Region: Condensation; pfam00668 1007105010524 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1007105010525 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 1007105010526 anti sigma factor interaction site; other site 1007105010527 regulatory phosphorylation site [posttranslational modification]; other site 1007105010528 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1007105010529 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1007105010530 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1007105010531 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1007105010532 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1007105010533 putative metal binding site [ion binding]; other site 1007105010534 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1007105010535 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 1007105010536 dimer interface [polypeptide binding]; other site 1007105010537 phosphorylation site [posttranslational modification] 1007105010538 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 1007105010539 ATP binding site [chemical binding]; other site 1007105010540 Mg2+ binding site [ion binding]; other site 1007105010541 G-X-G motif; other site 1007105010542 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1007105010543 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 1007105010544 active site 1007105010545 phosphorylation site [posttranslational modification] 1007105010546 intermolecular recognition site; other site 1007105010547 dimerization interface [polypeptide binding]; other site 1007105010548 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 1007105010549 DNA binding site [nucleotide binding] 1007105010550 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1007105010551 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 1007105010552 S-adenosylmethionine binding site [chemical binding]; other site 1007105010553 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1007105010554 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1007105010555 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1007105010556 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1007105010557 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1007105010558 dinuclear metal binding motif [ion binding]; other site 1007105010559 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1007105010560 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1007105010561 active site 1007105010562 nucleotide binding site [chemical binding]; other site 1007105010563 HIGH motif; other site 1007105010564 KMSKS motif; other site 1007105010565 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1007105010566 active site 1007105010567 catalytic residues [active] 1007105010568 metal binding site [ion binding]; metal-binding site 1007105010569 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105010570 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105010571 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105010572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010573 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1007105010574 putative dimerization interface [polypeptide binding]; other site 1007105010575 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1007105010576 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1007105010577 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 1007105010578 S-adenosylmethionine binding site [chemical binding]; other site 1007105010579 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 1007105010580 substrate binding site [chemical binding]; other site 1007105010581 dimer interface [polypeptide binding]; other site 1007105010582 ATP binding site [chemical binding]; other site 1007105010583 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 1007105010584 ThiS interaction site; other site 1007105010585 putative active site [active] 1007105010586 tetramer interface [polypeptide binding]; other site 1007105010587 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1007105010588 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1007105010589 cobalamin binding residues [chemical binding]; other site 1007105010590 putative BtuC binding residues; other site 1007105010591 dimer interface [polypeptide binding]; other site 1007105010592 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1007105010593 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 1007105010594 N-terminal plug; other site 1007105010595 ligand-binding site [chemical binding]; other site 1007105010596 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1007105010597 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1007105010598 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 1007105010599 substrate binding pocket [chemical binding]; other site 1007105010600 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 1007105010601 B12 binding site [chemical binding]; other site 1007105010602 cobalt ligand [ion binding]; other site 1007105010603 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1007105010604 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 1007105010605 salt bridge; other site 1007105010606 non-specific DNA binding site [nucleotide binding]; other site 1007105010607 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1007105010608 sequence-specific DNA binding site [nucleotide binding]; other site 1007105010609 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1007105010610 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1007105010611 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1007105010612 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1007105010613 active site 1007105010614 ATP-binding site [chemical binding]; other site 1007105010615 pantoate-binding site; other site 1007105010616 HXXH motif; other site 1007105010617 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 1007105010618 DNA binding residues [nucleotide binding] 1007105010619 dimerization interface [polypeptide binding]; other site 1007105010620 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 1007105010621 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 1007105010622 CoA-binding site [chemical binding]; other site 1007105010623 ATP-binding [chemical binding]; other site 1007105010624 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1007105010625 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1007105010626 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105010627 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105010628 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1007105010629 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1007105010630 Protein export membrane protein; Region: SecD_SecF; cl14618 1007105010631 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1007105010632 hypothetical protein; Provisional; Region: PRK08999 1007105010633 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 1007105010634 active site 1007105010635 8-oxo-dGMP binding site [chemical binding]; other site 1007105010636 nudix motif; other site 1007105010637 metal binding site [ion binding]; metal-binding site 1007105010638 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 1007105010639 thiamine phosphate binding site [chemical binding]; other site 1007105010640 active site 1007105010641 pyrophosphate binding site [ion binding]; other site 1007105010642 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1007105010643 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 1007105010644 Walker A motif; other site 1007105010645 ATP binding site [chemical binding]; other site 1007105010646 Walker B motif; other site 1007105010647 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1007105010648 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1007105010649 substrate binding pocket [chemical binding]; other site 1007105010650 chain length determination region; other site 1007105010651 substrate-Mg2+ binding site; other site 1007105010652 catalytic residues [active] 1007105010653 aspartate-rich region 1; other site 1007105010654 active site lid residues [active] 1007105010655 aspartate-rich region 2; other site 1007105010656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105010657 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105010658 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105010659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010660 DNA-binding site [nucleotide binding]; DNA binding site 1007105010661 FCD domain; Region: FCD; pfam07729 1007105010662 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105010663 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105010664 active site pocket [active] 1007105010665 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1007105010666 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 1007105010667 ligand binding site [chemical binding]; other site 1007105010668 NAD binding site [chemical binding]; other site 1007105010669 catalytic site [active] 1007105010670 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1007105010671 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105010672 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105010673 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105010674 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105010675 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1007105010676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1007105010677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1007105010678 OsmC-like protein; Region: OsmC; pfam02566 1007105010679 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 1007105010680 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1007105010681 active site 1007105010682 catalytic tetrad [active] 1007105010683 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1007105010684 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1007105010685 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 1007105010686 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1007105010687 NAD(P) binding site [chemical binding]; other site 1007105010688 choline dehydrogenase; Validated; Region: PRK02106 1007105010689 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1007105010690 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105010691 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1007105010692 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1007105010693 DctM-like transporters; Region: DctM; pfam06808 1007105010694 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1007105010695 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 1007105010696 tetramer interface [polypeptide binding]; other site 1007105010697 TPP-binding site [chemical binding]; other site 1007105010698 heterodimer interface [polypeptide binding]; other site 1007105010699 phosphorylation loop region [posttranslational modification] 1007105010700 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1007105010701 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 1007105010702 alpha subunit interface [polypeptide binding]; other site 1007105010703 TPP binding site [chemical binding]; other site 1007105010704 heterodimer interface [polypeptide binding]; other site 1007105010705 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1007105010706 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105010707 classical (c) SDRs; Region: SDR_c; cd05233 1007105010708 NAD(P) binding site [chemical binding]; other site 1007105010709 active site 1007105010710 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105010711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010712 DNA-binding site [nucleotide binding]; DNA binding site 1007105010713 FCD domain; Region: FCD; pfam07729 1007105010714 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1007105010715 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 1007105010716 E3 interaction surface; other site 1007105010717 lipoyl attachment site [posttranslational modification]; other site 1007105010718 e3 binding domain; Region: E3_binding; pfam02817 1007105010719 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1007105010720 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1007105010721 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1007105010722 heme binding site [chemical binding]; other site 1007105010723 ferroxidase pore; other site 1007105010724 ferroxidase diiron center [ion binding]; other site 1007105010725 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1007105010726 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105010727 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105010728 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1007105010729 CoA binding domain; Region: CoA_binding_2; pfam13380 1007105010730 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1007105010731 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1007105010732 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105010733 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105010734 active site 1007105010735 thiolase; Provisional; Region: PRK06158 1007105010736 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1007105010737 active site 1007105010738 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1007105010739 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1007105010740 DUF35 OB-fold domain; Region: DUF35; pfam01796 1007105010741 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1007105010742 active site 1007105010743 catalytic site [active] 1007105010744 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105010745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010746 transcriptional activator TtdR; Provisional; Region: PRK09801 1007105010747 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1007105010748 putative effector binding pocket; other site 1007105010749 putative dimerization interface [polypeptide binding]; other site 1007105010750 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105010751 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 1007105010752 putative active site pocket [active] 1007105010753 metal binding site [ion binding]; metal-binding site 1007105010754 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 1007105010755 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1007105010756 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1007105010757 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105010758 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105010759 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105010760 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1007105010761 active site pocket [active] 1007105010762 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1007105010763 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1007105010764 ligand binding site [chemical binding]; other site 1007105010765 NAD binding site [chemical binding]; other site 1007105010766 dimerization interface [polypeptide binding]; other site 1007105010767 catalytic site [active] 1007105010768 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105010769 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105010770 succinic semialdehyde dehydrogenase; Region: PLN02278 1007105010771 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1007105010772 tetramerization interface [polypeptide binding]; other site 1007105010773 NAD(P) binding site [chemical binding]; other site 1007105010774 catalytic residues [active] 1007105010775 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1007105010776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105010777 DNA-binding site [nucleotide binding]; DNA binding site 1007105010778 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1007105010779 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1007105010780 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1007105010781 metal binding site [ion binding]; metal-binding site 1007105010782 substrate binding pocket [chemical binding]; other site 1007105010783 MFS transport protein AraJ; Provisional; Region: PRK10091 1007105010784 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 1007105010785 putative substrate translocation pore; other site 1007105010786 VirB8 protein; Region: VirB8; cl01500 1007105010787 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 1007105010788 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105010789 putative substrate translocation pore; other site 1007105010790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105010791 enoyl-CoA hydratase; Provisional; Region: PRK09245 1007105010792 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 1007105010793 substrate binding site [chemical binding]; other site 1007105010794 oxyanion hole (OAH) forming residues; other site 1007105010795 trimer interface [polypeptide binding]; other site 1007105010796 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1007105010797 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105010798 active site 1007105010799 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1007105010800 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105010801 active site 1007105010802 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1007105010803 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1007105010804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105010805 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 1007105010806 dimerization interface [polypeptide binding]; other site 1007105010807 substrate binding pocket [chemical binding]; other site 1007105010808 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1007105010809 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105010810 classical (c) SDRs; Region: SDR_c; cd05233 1007105010811 NAD(P) binding site [chemical binding]; other site 1007105010812 active site 1007105010813 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1007105010814 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1007105010815 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 1007105010816 putative substrate translocation pore; other site 1007105010817 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 1007105010818 Na binding site [ion binding]; other site 1007105010819 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1007105010820 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1007105010821 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1007105010822 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105010823 ligand binding site [chemical binding]; other site 1007105010824 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1007105010825 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 1007105010826 sequence-specific DNA binding site [nucleotide binding]; other site 1007105010827 salt bridge; other site 1007105010828 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1007105010829 DNA binding site [nucleotide binding] 1007105010830 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1007105010831 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1007105010832 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1007105010833 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 1007105010834 putative DNA binding site [nucleotide binding]; other site 1007105010835 putative Zn2+ binding site [ion binding]; other site 1007105010836 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105010837 gamma-glutamyl kinase; Provisional; Region: PRK05429 1007105010838 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 1007105010839 nucleotide binding site [chemical binding]; other site 1007105010840 homotetrameric interface [polypeptide binding]; other site 1007105010841 putative phosphate binding site [ion binding]; other site 1007105010842 putative allosteric binding site; other site 1007105010843 PUA domain; Region: PUA; pfam01472 1007105010844 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1007105010845 GTP1/OBG; Region: GTP1_OBG; pfam01018 1007105010846 Obg GTPase; Region: Obg; cd01898 1007105010847 G1 box; other site 1007105010848 GTP/Mg2+ binding site [chemical binding]; other site 1007105010849 Switch I region; other site 1007105010850 G2 box; other site 1007105010851 G3 box; other site 1007105010852 Switch II region; other site 1007105010853 G4 box; other site 1007105010854 G5 box; other site 1007105010855 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1007105010856 Beta-lactamase; Region: Beta-lactamase; cl17358 1007105010857 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1007105010858 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1007105010859 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1007105010860 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1007105010861 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1007105010862 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 1007105010863 heterotetramer interface [polypeptide binding]; other site 1007105010864 active site pocket [active] 1007105010865 cleavage site 1007105010866 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1007105010867 MarR family; Region: MarR; pfam01047 1007105010868 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1007105010869 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1007105010870 hypothetical protein; Provisional; Region: PRK07236 1007105010871 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1007105010872 active site 1007105010873 FMN binding site [chemical binding]; other site 1007105010874 substrate binding site [chemical binding]; other site 1007105010875 homotetramer interface [polypeptide binding]; other site 1007105010876 catalytic residue [active] 1007105010877 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1007105010878 classical (c) SDRs; Region: SDR_c; cd05233 1007105010879 NAD(P) binding site [chemical binding]; other site 1007105010880 active site 1007105010881 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1007105010882 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 1007105010883 substrate binding site [chemical binding]; other site 1007105010884 oxyanion hole (OAH) forming residues; other site 1007105010885 trimer interface [polypeptide binding]; other site 1007105010886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1007105010887 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 1007105010888 active site 1007105010889 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1007105010890 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1007105010891 acyl-activating enzyme (AAE) consensus motif; other site 1007105010892 AMP binding site [chemical binding]; other site 1007105010893 active site 1007105010894 CoA binding site [chemical binding]; other site 1007105010895 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1007105010896 homotrimer interaction site [polypeptide binding]; other site 1007105010897 putative active site [active] 1007105010898 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1007105010899 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 1007105010900 inhibitor-cofactor binding pocket; inhibition site 1007105010901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105010902 catalytic residue [active] 1007105010903 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 1007105010904 thiamine phosphate binding site [chemical binding]; other site 1007105010905 active site 1007105010906 pyrophosphate binding site [ion binding]; other site 1007105010907 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 1007105010908 ATP binding site [chemical binding]; other site 1007105010909 hypothetical protein; Validated; Region: PRK00228 1007105010910 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1007105010911 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1007105010912 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1007105010913 putative acyl-acceptor binding pocket; other site 1007105010914 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1007105010915 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1007105010916 active site 1007105010917 metal binding site [ion binding]; metal-binding site 1007105010918 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1007105010919 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1007105010920 Transglycosylase; Region: Transgly; cl17702 1007105010921 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1007105010922 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1007105010923 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1007105010924 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1007105010925 shikimate binding site; other site 1007105010926 NAD(P) binding site [chemical binding]; other site 1007105010927 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1007105010928 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1007105010929 RNB domain; Region: RNB; pfam00773 1007105010930 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1007105010931 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105010932 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1007105010933 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1007105010934 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1007105010935 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1007105010936 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 1007105010937 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1007105010938 catalytic residues [active] 1007105010939 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 1007105010940 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1007105010941 trimer interface [polypeptide binding]; other site 1007105010942 active site 1007105010943 dimer interface [polypeptide binding]; other site 1007105010944 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1007105010945 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 1007105010946 carboxyltransferase (CT) interaction site; other site 1007105010947 biotinylation site [posttranslational modification]; other site 1007105010948 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1007105010949 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1007105010950 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1007105010951 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1007105010952 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1007105010953 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 1007105010954 S-adenosylmethionine binding site [chemical binding]; other site 1007105010955 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1007105010956 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1007105010957 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1007105010958 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1007105010959 substrate binding site [chemical binding]; other site 1007105010960 ATP binding site [chemical binding]; other site 1007105010961 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1007105010962 YGGT family; Region: YGGT; pfam02325 1007105010963 YGGT family; Region: YGGT; pfam02325 1007105010964 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1007105010965 dimer interface [polypeptide binding]; other site 1007105010966 putative radical transfer pathway; other site 1007105010967 diiron center [ion binding]; other site 1007105010968 tyrosyl radical; other site 1007105010969 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1007105010970 ATP cone domain; Region: ATP-cone; pfam03477 1007105010971 ATP cone domain; Region: ATP-cone; pfam03477 1007105010972 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1007105010973 active site 1007105010974 dimer interface [polypeptide binding]; other site 1007105010975 catalytic residues [active] 1007105010976 effector binding site; other site 1007105010977 R2 peptide binding site; other site 1007105010978 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 1007105010979 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 1007105010980 dimer interface [polypeptide binding]; other site 1007105010981 PYR/PP interface [polypeptide binding]; other site 1007105010982 TPP binding site [chemical binding]; other site 1007105010983 substrate binding site [chemical binding]; other site 1007105010984 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 1007105010985 TPP-binding site [chemical binding]; other site 1007105010986 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1007105010987 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1007105010988 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 1007105010989 putative DNA binding site [nucleotide binding]; other site 1007105010990 putative Zn2+ binding site [ion binding]; other site 1007105010991 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105010992 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1007105010993 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1007105010994 active site 1007105010995 HIGH motif; other site 1007105010996 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1007105010997 active site 1007105010998 KMSKS motif; other site 1007105010999 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1007105011000 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1007105011001 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1007105011002 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1007105011003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105011004 Coenzyme A binding pocket [chemical binding]; other site 1007105011005 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1007105011006 putative hydrolase; Provisional; Region: PRK11460 1007105011007 hypothetical protein; Provisional; Region: PRK05255 1007105011008 peptidase PmbA; Provisional; Region: PRK11040 1007105011009 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1007105011010 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1007105011011 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 1007105011012 23S rRNA interface [nucleotide binding]; other site 1007105011013 L3 interface [polypeptide binding]; other site 1007105011014 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1007105011015 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1007105011016 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1007105011017 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1007105011018 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1007105011019 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1007105011020 Peptidase family M23; Region: Peptidase_M23; pfam01551 1007105011021 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1007105011022 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1007105011023 active site 1007105011024 HIGH motif; other site 1007105011025 dimer interface [polypeptide binding]; other site 1007105011026 KMSKS motif; other site 1007105011027 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 1007105011028 RNA binding surface [nucleotide binding]; other site 1007105011029 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1007105011030 substrate binding site [chemical binding]; other site 1007105011031 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1007105011032 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 1007105011033 dimer interface [polypeptide binding]; other site 1007105011034 active site 1007105011035 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1007105011036 folate binding site [chemical binding]; other site 1007105011037 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1007105011038 ATP cone domain; Region: ATP-cone; pfam03477 1007105011039 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1007105011040 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 1007105011041 catalytic motif [active] 1007105011042 Zn binding site [ion binding]; other site 1007105011043 RibD C-terminal domain; Region: RibD_C; cl17279 1007105011044 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1007105011045 Lumazine binding domain; Region: Lum_binding; pfam00677 1007105011046 Lumazine binding domain; Region: Lum_binding; pfam00677 1007105011047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105011048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105011049 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 1007105011050 dimerization interface [polypeptide binding]; other site 1007105011051 choline dehydrogenase; Validated; Region: PRK02106 1007105011052 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1007105011053 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1007105011054 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1007105011055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105011056 DNA-binding site [nucleotide binding]; DNA binding site 1007105011057 FCD domain; Region: FCD; pfam07729 1007105011058 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 1007105011059 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1007105011060 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1007105011061 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1007105011062 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1007105011063 FAD binding domain; Region: FAD_binding_4; pfam01565 1007105011064 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1007105011065 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1007105011066 DctM-like transporters; Region: DctM; pfam06808 1007105011067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1007105011068 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1007105011069 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 1007105011070 salt bridge; other site 1007105011071 non-specific DNA binding site [nucleotide binding]; other site 1007105011072 sequence-specific DNA binding site [nucleotide binding]; other site 1007105011073 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1007105011074 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1007105011075 nucleotide binding site/active site [active] 1007105011076 HIT family signature motif; other site 1007105011077 catalytic residue [active] 1007105011078 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1007105011079 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1007105011080 dinuclear metal binding motif [ion binding]; other site 1007105011081 RNA polymerase sigma factor; Provisional; Region: PRK11922 1007105011082 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1007105011083 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 1007105011084 DNA binding residues [nucleotide binding] 1007105011085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105011086 Cupin domain; Region: Cupin_2; pfam07883 1007105011087 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1007105011088 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 1007105011089 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105011090 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105011091 hypothetical protein; Provisional; Region: PRK09256 1007105011092 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1007105011093 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1007105011094 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1007105011095 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1007105011096 active site residue [active] 1007105011097 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1007105011098 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1007105011099 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1007105011100 putative N-terminal domain interface [polypeptide binding]; other site 1007105011101 putative dimer interface [polypeptide binding]; other site 1007105011102 putative substrate binding pocket (H-site) [chemical binding]; other site 1007105011103 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1007105011104 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1007105011105 NAD binding site [chemical binding]; other site 1007105011106 homotetramer interface [polypeptide binding]; other site 1007105011107 homodimer interface [polypeptide binding]; other site 1007105011108 substrate binding site [chemical binding]; other site 1007105011109 active site 1007105011110 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1007105011111 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 1007105011112 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1007105011113 catalytic residue [active] 1007105011114 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1007105011115 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1007105011116 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1007105011117 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1007105011118 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1007105011119 RNA/DNA hybrid binding site [nucleotide binding]; other site 1007105011120 active site 1007105011121 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1007105011122 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1007105011123 HlyD family secretion protein; Region: HlyD_3; pfam13437 1007105011124 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1007105011125 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1007105011126 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 1007105011127 active site 1007105011128 catalytic site [active] 1007105011129 substrate binding site [chemical binding]; other site 1007105011130 Protein of unknown function (DUF3924); Region: DUF3924; pfam13062 1007105011131 PIN domain; Region: PIN_3; pfam13470 1007105011132 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1007105011133 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; cd00322 1007105011134 FAD binding pocket [chemical binding]; other site 1007105011135 conserved FAD binding motif [chemical binding]; other site 1007105011136 phosphate binding motif [ion binding]; other site 1007105011137 beta-alpha-beta structure motif; other site 1007105011138 NAD binding pocket [chemical binding]; other site 1007105011139 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1007105011140 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1007105011141 active site 1007105011142 FMN binding site [chemical binding]; other site 1007105011143 substrate binding site [chemical binding]; other site 1007105011144 homotetramer interface [polypeptide binding]; other site 1007105011145 catalytic residue [active] 1007105011146 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 1007105011147 dimerization interface [polypeptide binding]; other site 1007105011148 putative DNA binding site [nucleotide binding]; other site 1007105011149 putative Zn2+ binding site [ion binding]; other site 1007105011150 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105011151 EamA-like transporter family; Region: EamA; pfam00892 1007105011152 EamA-like transporter family; Region: EamA; pfam00892 1007105011153 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 1007105011154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1007105011155 DNA-binding site [nucleotide binding]; DNA binding site 1007105011156 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 1007105011157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105011158 homodimer interface [polypeptide binding]; other site 1007105011159 catalytic residue [active] 1007105011160 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1007105011161 putative acetyltransferase; Provisional; Region: PRK03624 1007105011162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1007105011163 Coenzyme A binding pocket [chemical binding]; other site 1007105011164 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1007105011165 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1007105011166 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1007105011167 active site 1007105011168 non-prolyl cis peptide bond; other site 1007105011169 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105011170 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105011171 putative ligand binding site [chemical binding]; other site 1007105011172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105011173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105011174 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 1007105011175 dimerization interface [polypeptide binding]; other site 1007105011176 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1007105011177 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1007105011178 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1007105011179 putative ligand binding site [chemical binding]; other site 1007105011180 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1007105011181 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 1007105011182 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1007105011183 Sulfatase; Region: Sulfatase; cl17466 1007105011184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1007105011185 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1007105011186 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1007105011187 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1007105011188 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1007105011189 inhibitor site; inhibition site 1007105011190 active site 1007105011191 dimer interface [polypeptide binding]; other site 1007105011192 catalytic residue [active] 1007105011193 thiamine pyrophosphate protein; Validated; Region: PRK08199 1007105011194 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1007105011195 PYR/PP interface [polypeptide binding]; other site 1007105011196 dimer interface [polypeptide binding]; other site 1007105011197 TPP binding site [chemical binding]; other site 1007105011198 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1007105011199 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 1007105011200 TPP-binding site [chemical binding]; other site 1007105011201 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1007105011202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1007105011203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1007105011204 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1007105011205 putative dimerization interface [polypeptide binding]; other site 1007105011206 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1007105011207 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 1007105011208 phosphate binding site [ion binding]; other site 1007105011209 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1007105011210 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1007105011211 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1007105011212 hypothetical protein; Provisional; Region: PRK10279 1007105011213 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1007105011214 active site 1007105011215 nucleophile elbow; other site 1007105011216 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1007105011217 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 1007105011218 N-terminal plug; other site 1007105011219 ligand-binding site [chemical binding]; other site 1007105011220 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1007105011221 Amidohydrolase; Region: Amidohydro_2; pfam04909 1007105011222 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 1007105011223 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1007105011224 homotrimer interaction site [polypeptide binding]; other site 1007105011225 putative active site [active] 1007105011226 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1007105011227 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1007105011228 NAD binding site [chemical binding]; other site 1007105011229 catalytic residues [active] 1007105011230 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1007105011231 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1007105011232 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1007105011233 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1007105011234 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1007105011235 ligand binding site [chemical binding]; other site 1007105011236 homodimer interface [polypeptide binding]; other site 1007105011237 NAD(P) binding site [chemical binding]; other site 1007105011238 trimer interface B [polypeptide binding]; other site 1007105011239 trimer interface A [polypeptide binding]; other site 1007105011240 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1007105011241 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1007105011242 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 1007105011243 homodimer interface [polypeptide binding]; other site 1007105011244 substrate-cofactor binding pocket; other site 1007105011245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1007105011246 catalytic residue [active] 1007105011247 AsmA family; Region: AsmA; pfam05170 1007105011248 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1007105011249 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1007105011250 Ferredoxin [Energy production and conversion]; Region: COG1146 1007105011251 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1007105011252 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1007105011253 active site 1007105011254 (T/H)XGH motif; other site 1007105011255 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1007105011256 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 1007105011257 S-adenosylmethionine binding site [chemical binding]; other site 1007105011258 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1007105011259 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1007105011260 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 1007105011261 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1007105011262 putative active site [active] 1007105011263 putative metal binding residues [ion binding]; other site 1007105011264 signature motif; other site 1007105011265 putative triphosphate binding site [ion binding]; other site 1007105011266 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1007105011267 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 1007105011268 dimer interface [polypeptide binding]; other site 1007105011269 conserved gate region; other site 1007105011270 ABC-ATPase subunit interface; other site 1007105011271 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1007105011272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1007105011273 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1007105011274 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1007105011275 Walker A/P-loop; other site 1007105011276 ATP binding site [chemical binding]; other site 1007105011277 Q-loop/lid; other site 1007105011278 ABC transporter signature motif; other site 1007105011279 Walker B; other site 1007105011280 D-loop; other site 1007105011281 H-loop/switch region; other site 1007105011282 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1007105011283 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 1007105011284 substrate binding pocket [chemical binding]; other site 1007105011285 membrane-bound complex binding site; other site 1007105011286 hinge residues; other site 1007105011287 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1007105011288 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1007105011289 Bacterial transcriptional regulator; Region: IclR; pfam01614 1007105011290 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1007105011291 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1007105011292 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1007105011293 dimerization interface [polypeptide binding]; other site 1007105011294 active site 1007105011295 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 1007105011296 homopentamer interface [polypeptide binding]; other site 1007105011297 active site 1007105011298 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1007105011299 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 1007105011300 thiamine monophosphate kinase; Provisional; Region: PRK05731 1007105011301 ATP binding site [chemical binding]; other site 1007105011302 dimerization interface [polypeptide binding]; other site 1007105011303 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1007105011304 tetramer interfaces [polypeptide binding]; other site 1007105011305 binuclear metal-binding site [ion binding]; other site 1007105011306 Competence-damaged protein; Region: CinA; pfam02464 1007105011307 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 1007105011308 active site 1007105011309 dimer interface [polypeptide binding]; other site 1007105011310 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1007105011311 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1007105011312 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 1007105011313 ring oligomerisation interface [polypeptide binding]; other site 1007105011314 ATP/Mg binding site [chemical binding]; other site 1007105011315 stacking interactions; other site 1007105011316 hinge regions; other site 1007105011317 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 1007105011318 oligomerisation interface [polypeptide binding]; other site 1007105011319 mobile loop; other site 1007105011320 roof hairpin; other site 1007105011321 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1007105011322 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1007105011323 Predicted transcriptional regulators [Transcription]; Region: COG1695 1007105011324 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1007105011325 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1007105011326 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1007105011327 FAD binding pocket [chemical binding]; other site 1007105011328 FAD binding motif [chemical binding]; other site 1007105011329 phosphate binding motif [ion binding]; other site 1007105011330 NAD binding pocket [chemical binding]; other site 1007105011331 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1007105011332 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1007105011333 active site 1007105011334 substrate binding site [chemical binding]; other site 1007105011335 FMN binding site [chemical binding]; other site 1007105011336 putative catalytic residues [active] 1007105011337 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1007105011338 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1007105011339 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 1007105011340 N-terminal plug; other site 1007105011341 ligand-binding site [chemical binding]; other site 1007105011342 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1007105011343 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 1007105011344 active site 1007105011345 phosphorylation site [posttranslational modification] 1007105011346 intermolecular recognition site; other site 1007105011347 dimerization interface [polypeptide binding]; other site 1007105011348 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 1007105011349 DNA binding site [nucleotide binding] 1007105011350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105011351 HAMP domain; Region: HAMP; pfam00672 1007105011352 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1007105011353 dimer interface [polypeptide binding]; other site 1007105011354 phosphorylation site [posttranslational modification] 1007105011355 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 1007105011356 ATP binding site [chemical binding]; other site 1007105011357 Mg2+ binding site [ion binding]; other site 1007105011358 G-X-G motif; other site 1007105011359 Predicted flavoprotein [General function prediction only]; Region: COG0431 1007105011360 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1007105011361 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1007105011362 EamA-like transporter family; Region: EamA; pfam00892 1007105011363 EamA-like transporter family; Region: EamA; pfam00892 1007105011364 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1007105011365 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1007105011366 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 1007105011367 peroxiredoxin; Region: AhpC; TIGR03137 1007105011368 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 1007105011369 dimer interface [polypeptide binding]; other site 1007105011370 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1007105011371 catalytic triad [active] 1007105011372 peroxidatic and resolving cysteines [active] 1007105011373 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1007105011374 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1007105011375 catalytic residue [active] 1007105011376 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1007105011377 catalytic residues [active] 1007105011378 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1007105011379 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1007105011380 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 1007105011381 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1007105011382 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1007105011383 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1007105011384 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1007105011385 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1007105011386 Walker A/P-loop; other site 1007105011387 ATP binding site [chemical binding]; other site 1007105011388 Q-loop/lid; other site 1007105011389 ABC transporter signature motif; other site 1007105011390 Walker B; other site 1007105011391 D-loop; other site 1007105011392 H-loop/switch region; other site 1007105011393 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1007105011394 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105011395 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1007105011396 TM-ABC transporter signature motif; other site 1007105011397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1007105011398 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1007105011399 TM-ABC transporter signature motif; other site 1007105011400 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1007105011401 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1007105011402 putative ligand binding site [chemical binding]; other site 1007105011403 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 1007105011404 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1007105011405 active site 1007105011406 catalytic tetrad [active] 1007105011407 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1007105011408 CoenzymeA binding site [chemical binding]; other site 1007105011409 subunit interaction site [polypeptide binding]; other site 1007105011410 PHB binding site; other site 1007105011411 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1007105011412 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1007105011413 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1007105011414 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1007105011415 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1007105011416 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1007105011417 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1007105011418 ligand binding site [chemical binding]; other site 1007105011419 translocation protein TolB; Provisional; Region: tolB; PRK02889 1007105011420 TolB amino-terminal domain; Region: TolB_N; pfam04052 1007105011421 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1007105011422 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1007105011423 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1007105011424 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1007105011425 TonB C terminal; Region: TonB_2; pfam13103 1007105011426 TolA protein; Region: tolA_full; TIGR02794 1007105011427 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1007105011428 TolR protein; Region: tolR; TIGR02801 1007105011429 TolQ protein; Region: tolQ; TIGR02796 1007105011430 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 1007105011431 active site 1007105011432 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1007105011433 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 1007105011434 dimer interface [polypeptide binding]; other site 1007105011435 motif 1; other site 1007105011436 active site 1007105011437 motif 2; other site 1007105011438 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1007105011439 putative deacylase active site [active] 1007105011440 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 1007105011441 active site 1007105011442 motif 3; other site 1007105011443 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 1007105011444 anticodon binding site; other site 1007105011445 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 1007105011446 putative active site [active] 1007105011447 Ap4A binding site [chemical binding]; other site 1007105011448 nudix motif; other site 1007105011449 putative metal binding site [ion binding]; other site 1007105011450 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1007105011451 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 1007105011452 active site 1007105011453 phosphorylation site [posttranslational modification] 1007105011454 intermolecular recognition site; other site 1007105011455 dimerization interface [polypeptide binding]; other site 1007105011456 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 1007105011457 DNA binding site [nucleotide binding] 1007105011458 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1007105011459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1007105011460 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 1007105011461 dimer interface [polypeptide binding]; other site 1007105011462 phosphorylation site [posttranslational modification] 1007105011463 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 1007105011464 ATP binding site [chemical binding]; other site 1007105011465 Mg2+ binding site [ion binding]; other site 1007105011466 G-X-G motif; other site 1007105011467 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1007105011468 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1007105011469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1007105011470 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1007105011471 Cell division protein ZapA; Region: ZapA; pfam05164 1007105011472 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1007105011473 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1007105011474 Cytochrome c; Region: Cytochrom_C; cl11414 1007105011475 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1007105011476 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 1007105011477 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1007105011478 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1007105011479 dimer interface [polypeptide binding]; other site 1007105011480 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1007105011481 active site 1007105011482 Fe binding site [ion binding]; other site 1007105011483 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1007105011484 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 1007105011485 putative DNA binding site [nucleotide binding]; other site 1007105011486 putative Zn2+ binding site [ion binding]; other site 1007105011487 AsnC family; Region: AsnC_trans_reg; pfam01037 1007105011488 Predicted membrane protein [Function unknown]; Region: COG3671 1007105011489 SWIB/MDM2 domain; Region: SWIB; pfam02201 1007105011490 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1007105011491 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 1007105011492 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1007105011493 Zn binding sites [ion binding]; other site 1007105011494 ERF superfamily; Region: ERF; pfam04404 1007105011495 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1007105011496 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1007105011497 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 1007105011498 dimer interface [polypeptide binding]; other site 1007105011499 ssDNA binding site [nucleotide binding]; other site 1007105011500 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1007105011501 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 1007105011502 HNH endonuclease; Region: HNH_3; pfam13392 1007105011503 AP2 domain; Region: AP2; pfam00847 1007105011504 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1007105011505 integrase; Provisional; Region: int; PHA02601 1007105011506 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 1007105011507 active site 1007105011508 DNA binding site [nucleotide binding] 1007105011509 Int/Topo IB signature motif; other site 1007105011510 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1007105011511 catalytic residue [active] 1007105011512 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 1007105011513 GIY-YIG motif/motif A; other site 1007105011514 putative active site [active] 1007105011515 putative metal binding site [ion binding]; other site 1007105011516 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1007105011517 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1007105011518 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1007105011519 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1007105011520 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1007105011521 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1007105011522 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 1007105011523 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1007105011524 oligomerization interface [polypeptide binding]; other site 1007105011525 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1007105011526 Phage capsid family; Region: Phage_capsid; pfam05065 1007105011527 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1007105011528 oligomer interface [polypeptide binding]; other site 1007105011529 active site residues [active] 1007105011530 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1007105011531 Phage portal protein; Region: Phage_portal; pfam04860 1007105011532 Phage Terminase; Region: Terminase_1; pfam03354 1007105011533 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 1007105011534 active site 1007105011535 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 1007105011536 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1007105011537 Walker A motif; other site 1007105011538 ATP binding site [chemical binding]; other site 1007105011539 Walker B motif; other site 1007105011540 arginine finger; other site 1007105011541 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1007105011542 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1007105011543 NinB protein; Region: NinB; pfam05772