-- dump date 20140618_193640 -- class Genbank::misc_feature -- table misc_feature_note -- id note 930169000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 930169000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 930169000003 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 930169000004 Walker A motif; other site 930169000005 ATP binding site [chemical binding]; other site 930169000006 Walker B motif; other site 930169000007 arginine finger; other site 930169000008 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 930169000009 DnaA box-binding interface [nucleotide binding]; other site 930169000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 930169000011 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 930169000012 putative DNA binding surface [nucleotide binding]; other site 930169000013 dimer interface [polypeptide binding]; other site 930169000014 beta-clamp/clamp loader binding surface; other site 930169000015 beta-clamp/translesion DNA polymerase binding surface; other site 930169000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 930169000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169000018 Walker A/P-loop; other site 930169000019 ATP binding site [chemical binding]; other site 930169000020 Q-loop/lid; other site 930169000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169000022 ABC transporter signature motif; other site 930169000023 Walker B; other site 930169000024 D-loop; other site 930169000025 H-loop/switch region; other site 930169000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 930169000027 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 930169000028 ATP binding site [chemical binding]; other site 930169000029 Mg2+ binding site [ion binding]; other site 930169000030 G-X-G motif; other site 930169000031 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 930169000032 anchoring element; other site 930169000033 dimer interface [polypeptide binding]; other site 930169000034 ATP binding site [chemical binding]; other site 930169000035 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 930169000036 active site 930169000037 putative metal-binding site [ion binding]; other site 930169000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 930169000039 H-NS histone family; Region: Histone_HNS; pfam00816 930169000040 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 930169000041 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 930169000042 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 930169000043 putative acyl-acceptor binding pocket; other site 930169000044 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 930169000045 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 930169000046 active site 930169000047 motif I; other site 930169000048 motif II; other site 930169000049 Transcriptional regulators [Transcription]; Region: FadR; COG2186 930169000050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169000051 DNA-binding site [nucleotide binding]; DNA binding site 930169000052 FCD domain; Region: FCD; pfam07729 930169000053 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 930169000054 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 930169000055 putative active site [active] 930169000056 putative catalytic site [active] 930169000057 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 930169000058 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_2; cd06335 930169000059 putative ligand binding site [chemical binding]; other site 930169000060 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 930169000061 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169000062 TM-ABC transporter signature motif; other site 930169000063 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169000064 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 930169000065 TM-ABC transporter signature motif; other site 930169000066 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169000067 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169000068 Walker A/P-loop; other site 930169000069 ATP binding site [chemical binding]; other site 930169000070 Q-loop/lid; other site 930169000071 ABC transporter signature motif; other site 930169000072 Walker B; other site 930169000073 D-loop; other site 930169000074 H-loop/switch region; other site 930169000075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169000076 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169000077 Walker A/P-loop; other site 930169000078 ATP binding site [chemical binding]; other site 930169000079 Q-loop/lid; other site 930169000080 ABC transporter signature motif; other site 930169000081 Walker B; other site 930169000082 D-loop; other site 930169000083 H-loop/switch region; other site 930169000084 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 930169000085 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 930169000086 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 930169000087 dimer interface [polypeptide binding]; other site 930169000088 motif 1; other site 930169000089 active site 930169000090 motif 2; other site 930169000091 motif 3; other site 930169000092 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 930169000093 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 930169000094 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 930169000095 catalytic triad [active] 930169000096 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 930169000097 putative trimer interface [polypeptide binding]; other site 930169000098 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 930169000099 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 930169000100 trimer interface [polypeptide binding]; other site 930169000101 active site 930169000102 substrate binding site [chemical binding]; other site 930169000103 putative CoA binding site [chemical binding]; other site 930169000104 CoA binding site [chemical binding]; other site 930169000105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169000106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169000107 WHG domain; Region: WHG; pfam13305 930169000108 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 930169000109 putative substrate translocation pore; other site 930169000110 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 930169000111 putative acyl-acceptor binding pocket; other site 930169000112 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 930169000113 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 930169000114 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 930169000115 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 930169000116 FAD binding domain; Region: FAD_binding_4; pfam01565 930169000117 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 930169000118 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 930169000119 ligand binding site [chemical binding]; other site 930169000120 NAD binding site [chemical binding]; other site 930169000121 tetramer interface [polypeptide binding]; other site 930169000122 catalytic site [active] 930169000123 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 930169000124 L-serine binding site [chemical binding]; other site 930169000125 ACT domain interface; other site 930169000126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 930169000127 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 930169000128 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 930169000129 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 930169000130 putative dimer interface [polypeptide binding]; other site 930169000131 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 930169000132 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 930169000133 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 930169000134 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 930169000135 TrkA-N domain; Region: TrkA_N; pfam02254 930169000136 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 930169000137 active site 930169000138 metal binding site [ion binding]; metal-binding site 930169000139 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169000140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169000141 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 930169000142 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 930169000143 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 930169000144 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 930169000145 active site 930169000146 (T/H)XGH motif; other site 930169000147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169000148 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 930169000149 NAD(P) binding site [chemical binding]; other site 930169000150 active site 930169000151 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 930169000152 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 930169000153 DNA binding residues [nucleotide binding] 930169000154 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 930169000155 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 930169000156 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169000157 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 930169000158 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 930169000159 NAD(P) binding site [chemical binding]; other site 930169000160 catalytic residues [active] 930169000161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169000162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169000163 Bacterial transcriptional repressor; Region: TetR; pfam13972 930169000164 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169000165 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169000166 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169000167 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169000168 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169000169 DctM-like transporters; Region: DctM; pfam06808 930169000170 Coenzyme A transferase; Region: CoA_trans; cl17247 930169000171 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 930169000172 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 930169000173 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 930169000174 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 930169000175 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 930169000176 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 930169000177 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 930169000178 amidase; Provisional; Region: PRK08137 930169000179 Amidase; Region: Amidase; cl11426 930169000180 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 930169000181 dimerization interface [polypeptide binding]; other site 930169000182 putative DNA binding site [nucleotide binding]; other site 930169000183 putative Zn2+ binding site [ion binding]; other site 930169000184 Predicted transporter component [General function prediction only]; Region: COG2391 930169000185 Sulphur transport; Region: Sulf_transp; pfam04143 930169000186 Sulphur transport; Region: Sulf_transp; pfam04143 930169000187 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169000188 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 930169000189 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 930169000190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169000191 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 930169000192 putative dimerization interface [polypeptide binding]; other site 930169000193 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 930169000194 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169000195 dimer interface [polypeptide binding]; other site 930169000196 active site 930169000197 metal binding site [ion binding]; metal-binding site 930169000198 glutathione binding site [chemical binding]; other site 930169000199 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 930169000200 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 930169000201 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 930169000202 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930169000203 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 930169000204 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930169000205 putative acyl-acceptor binding pocket; other site 930169000206 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 930169000207 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 930169000208 CheW-like domain; Region: CheW; pfam01584 930169000209 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 930169000210 CheB methylesterase; Region: CheB_methylest; pfam01339 930169000211 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 930169000212 putative binding surface; other site 930169000213 active site 930169000214 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 930169000215 putative binding surface; other site 930169000216 active site 930169000217 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 930169000218 putative binding surface; other site 930169000219 active site 930169000220 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 930169000221 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 930169000222 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 930169000223 ATP binding site [chemical binding]; other site 930169000224 Mg2+ binding site [ion binding]; other site 930169000225 G-X-G motif; other site 930169000226 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 930169000227 Response regulator receiver domain; Region: Response_reg; pfam00072 930169000228 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 930169000229 active site 930169000230 phosphorylation site [posttranslational modification] 930169000231 intermolecular recognition site; other site 930169000232 dimerization interface [polypeptide binding]; other site 930169000233 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 930169000234 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 930169000235 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 930169000236 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 930169000237 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169000238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169000239 dimer interface [polypeptide binding]; other site 930169000240 putative CheW interface [polypeptide binding]; other site 930169000241 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 930169000242 Response regulator receiver domain; Region: Response_reg; pfam00072 930169000243 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 930169000244 active site 930169000245 phosphorylation site [posttranslational modification] 930169000246 intermolecular recognition site; other site 930169000247 dimerization interface [polypeptide binding]; other site 930169000248 Response regulator receiver domain; Region: Response_reg; pfam00072 930169000249 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 930169000250 active site 930169000251 phosphorylation site [posttranslational modification] 930169000252 intermolecular recognition site; other site 930169000253 dimerization interface [polypeptide binding]; other site 930169000254 glutathione synthetase; Provisional; Region: PRK05246 930169000255 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 930169000256 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 930169000257 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930169000258 hypothetical protein; Validated; Region: PRK00228 930169000259 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 930169000260 Fic family protein [Function unknown]; Region: COG3177 930169000261 Fic/DOC family; Region: Fic; pfam02661 930169000262 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 930169000263 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 930169000264 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 930169000265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169000266 active site 930169000267 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 930169000268 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 930169000269 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 930169000270 dihydroorotase; Validated; Region: pyrC; PRK09357 930169000271 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 930169000272 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 930169000273 active site 930169000274 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 930169000275 catalytic residues [active] 930169000276 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 930169000277 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 930169000278 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169000279 catalytic residues [active] 930169000280 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 930169000281 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 930169000282 active site 930169000283 phosphorylation site [posttranslational modification] 930169000284 intermolecular recognition site; other site 930169000285 dimerization interface [polypeptide binding]; other site 930169000286 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 930169000287 DNA binding site [nucleotide binding] 930169000288 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 930169000289 dimer interface [polypeptide binding]; other site 930169000290 phosphorylation site [posttranslational modification] 930169000291 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 930169000292 ATP binding site [chemical binding]; other site 930169000293 Mg2+ binding site [ion binding]; other site 930169000294 G-X-G motif; other site 930169000295 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 930169000296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169000297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169000298 LysR substrate binding domain; Region: LysR_substrate; pfam03466 930169000299 dimerization interface [polypeptide binding]; other site 930169000300 azoreductase; Reviewed; Region: PRK00170 930169000301 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169000302 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 930169000303 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 930169000304 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 930169000305 putative dimer interface [polypeptide binding]; other site 930169000306 N-terminal domain interface [polypeptide binding]; other site 930169000307 putative substrate binding pocket (H-site) [chemical binding]; other site 930169000308 Pirin-related protein [General function prediction only]; Region: COG1741 930169000309 Pirin; Region: Pirin; pfam02678 930169000310 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 930169000311 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 930169000312 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 930169000313 sequence-specific DNA binding site [nucleotide binding]; other site 930169000314 salt bridge; other site 930169000315 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 930169000316 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 930169000317 Walker A motif; other site 930169000318 ATP binding site [chemical binding]; other site 930169000319 Walker B motif; other site 930169000320 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 930169000321 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 930169000322 Walker A motif; other site 930169000323 ATP binding site [chemical binding]; other site 930169000324 Walker B motif; other site 930169000325 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 930169000326 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169000327 catalytic residue [active] 930169000328 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 930169000329 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 930169000330 YGGT family; Region: YGGT; pfam02325 930169000331 YGGT family; Region: YGGT; pfam02325 930169000332 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 930169000333 active site 930169000334 catalytic residues [active] 930169000335 metal binding site [ion binding]; metal-binding site 930169000336 Lipase (class 2); Region: Lipase_2; pfam01674 930169000337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169000338 OsmC-like protein; Region: OsmC; cl00767 930169000339 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169000340 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169000341 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169000342 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169000343 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 930169000344 catalytic core [active] 930169000345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169000346 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169000347 active site 930169000348 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 930169000349 active site 930169000350 catalytic site [active] 930169000351 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 930169000352 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 930169000353 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 930169000354 metal ion-dependent adhesion site (MIDAS); other site 930169000355 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169000356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169000357 DNA-binding site [nucleotide binding]; DNA binding site 930169000358 FCD domain; Region: FCD; cl11656 930169000359 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 930169000360 Fatty acid desaturase; Region: FA_desaturase; pfam00487 930169000361 Di-iron ligands [ion binding]; other site 930169000362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 930169000363 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 930169000364 DNA photolyase; Region: DNA_photolyase; pfam00875 930169000365 enoyl-CoA hydratase; Provisional; Region: PRK09245 930169000366 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 930169000367 substrate binding site [chemical binding]; other site 930169000368 oxyanion hole (OAH) forming residues; other site 930169000369 trimer interface [polypeptide binding]; other site 930169000370 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169000371 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169000372 active site 930169000373 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169000374 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 930169000375 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 930169000376 dimer interface [polypeptide binding]; other site 930169000377 active site 930169000378 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169000379 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169000380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930169000381 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930169000382 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930169000383 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 930169000384 Amidohydrolase; Region: Amidohydro_2; pfam04909 930169000385 Cation transport protein; Region: TrkH; cl17365 930169000386 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 930169000387 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 930169000388 TrkA-N domain; Region: TrkA_N; pfam02254 930169000389 TrkA-C domain; Region: TrkA_C; pfam02080 930169000390 TrkA-N domain; Region: TrkA_N; pfam02254 930169000391 TrkA-C domain; Region: TrkA_C; pfam02080 930169000392 16S rRNA methyltransferase B; Provisional; Region: PRK10901 930169000393 NusB family; Region: NusB; pfam01029 930169000394 putative RNA binding site [nucleotide binding]; other site 930169000395 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 930169000396 S-adenosylmethionine binding site [chemical binding]; other site 930169000397 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 930169000398 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 930169000399 putative active site [active] 930169000400 substrate binding site [chemical binding]; other site 930169000401 putative cosubstrate binding site; other site 930169000402 catalytic site [active] 930169000403 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 930169000404 substrate binding site [chemical binding]; other site 930169000405 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 930169000406 active site 930169000407 catalytic residues [active] 930169000408 metal binding site [ion binding]; metal-binding site 930169000409 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 930169000410 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169000411 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 930169000412 DNA protecting protein DprA; Region: dprA; TIGR00732 930169000413 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 930169000414 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 930169000415 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 930169000416 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 930169000417 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 930169000418 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 930169000419 shikimate binding site; other site 930169000420 NAD(P) binding site [chemical binding]; other site 930169000421 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 930169000422 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 930169000423 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 930169000424 trimer interface [polypeptide binding]; other site 930169000425 putative metal binding site [ion binding]; other site 930169000426 oligopeptidase A; Provisional; Region: PRK10911 930169000427 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 930169000428 active site 930169000429 Zn binding site [ion binding]; other site 930169000430 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 930169000431 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169000432 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 930169000433 N-terminal plug; other site 930169000434 ligand-binding site [chemical binding]; other site 930169000435 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 930169000436 amphipathic channel; other site 930169000437 Asn-Pro-Ala signature motifs; other site 930169000438 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930169000439 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930169000440 PapC N-terminal domain; Region: PapC_N; pfam13954 930169000441 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930169000442 PapC C-terminal domain; Region: PapC_C; pfam13953 930169000443 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 930169000444 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930169000445 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930169000446 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930169000447 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169000448 MarR family; Region: MarR_2; pfam12802 930169000449 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 930169000450 CoenzymeA binding site [chemical binding]; other site 930169000451 subunit interaction site [polypeptide binding]; other site 930169000452 PHB binding site; other site 930169000453 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 930169000454 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 930169000455 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 930169000456 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 930169000457 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 930169000458 Autotransporter beta-domain; Region: Autotransporter; pfam03797 930169000459 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 930169000460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 930169000461 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 930169000462 BCCT family transporter; Region: BCCT; pfam02028 930169000463 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 930169000464 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 930169000465 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169000466 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 930169000467 FAD binding pocket [chemical binding]; other site 930169000468 FAD binding motif [chemical binding]; other site 930169000469 phosphate binding motif [ion binding]; other site 930169000470 beta-alpha-beta structure motif; other site 930169000471 NAD binding pocket [chemical binding]; other site 930169000472 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 930169000473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169000474 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 930169000475 putative dimerization interface [polypeptide binding]; other site 930169000476 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 930169000477 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 930169000478 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 930169000479 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 930169000480 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 930169000481 generic binding surface II; other site 930169000482 ssDNA binding site; other site 930169000483 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 930169000484 ATP binding site [chemical binding]; other site 930169000485 putative Mg++ binding site [ion binding]; other site 930169000486 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 930169000487 nucleotide binding region [chemical binding]; other site 930169000488 ATP-binding site [chemical binding]; other site 930169000489 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 930169000490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169000491 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 930169000492 dimerization interface [polypeptide binding]; other site 930169000493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169000494 NAD(P) binding site [chemical binding]; other site 930169000495 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 930169000496 active site 930169000497 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 930169000498 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 930169000499 ATP-grasp domain; Region: ATP-grasp; pfam02222 930169000500 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 930169000501 Carboxylesterase family; Region: COesterase; pfam00135 930169000502 substrate binding pocket [chemical binding]; other site 930169000503 catalytic triad [active] 930169000504 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 930169000505 nucleophilic elbow; other site 930169000506 catalytic triad; other site 930169000507 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 930169000508 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 930169000509 homotrimer interaction site [polypeptide binding]; other site 930169000510 putative active site [active] 930169000511 hypothetical protein; Provisional; Region: PRK01617 930169000512 SEC-C motif; Region: SEC-C; pfam02810 930169000513 Cytochrome c; Region: Cytochrom_C; pfam00034 930169000514 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 930169000515 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169000516 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169000517 Methylamine utilisation protein MauE; Region: MauE; pfam07291 930169000518 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 930169000519 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 930169000520 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930169000521 Zn2+ binding site [ion binding]; other site 930169000522 Mg2+ binding site [ion binding]; other site 930169000523 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 930169000524 synthetase active site [active] 930169000525 NTP binding site [chemical binding]; other site 930169000526 metal binding site [ion binding]; metal-binding site 930169000527 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 930169000528 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 930169000529 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 930169000530 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 930169000531 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 930169000532 catalytic site [active] 930169000533 G-X2-G-X-G-K; other site 930169000534 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 930169000535 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 930169000536 putative active site [active] 930169000537 Zn binding site [ion binding]; other site 930169000538 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 930169000539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169000540 DNA-binding site [nucleotide binding]; DNA binding site 930169000541 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 930169000542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169000543 homodimer interface [polypeptide binding]; other site 930169000544 catalytic residue [active] 930169000545 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 930169000546 homodimer interface [polypeptide binding]; other site 930169000547 catalytic residues [active] 930169000548 NAD binding site [chemical binding]; other site 930169000549 substrate binding pocket [chemical binding]; other site 930169000550 flexible flap; other site 930169000551 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169000552 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169000553 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169000554 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169000555 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 930169000556 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 930169000557 active site 2 [active] 930169000558 active site 1 [active] 930169000559 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169000560 DctM-like transporters; Region: DctM; pfam06808 930169000561 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169000562 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 930169000563 non-specific DNA binding site [nucleotide binding]; other site 930169000564 salt bridge; other site 930169000565 sequence-specific DNA binding site [nucleotide binding]; other site 930169000566 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169000567 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 930169000568 salt bridge; other site 930169000569 non-specific DNA binding site [nucleotide binding]; other site 930169000570 sequence-specific DNA binding site [nucleotide binding]; other site 930169000571 Domain of unknown function (DUF955); Region: DUF955; cl01076 930169000572 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 930169000573 hypothetical protein; Provisional; Region: PRK11820 930169000574 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 930169000575 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 930169000576 ribonuclease PH; Reviewed; Region: rph; PRK00173 930169000577 Ribonuclease PH; Region: RNase_PH_bact; cd11362 930169000578 hexamer interface [polypeptide binding]; other site 930169000579 active site 930169000580 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169000581 active site 930169000582 division inhibitor protein; Provisional; Region: slmA; PRK09480 930169000583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169000584 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 930169000585 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 930169000586 feedback inhibition sensing region; other site 930169000587 homohexameric interface [polypeptide binding]; other site 930169000588 nucleotide binding site [chemical binding]; other site 930169000589 N-acetyl-L-glutamate binding site [chemical binding]; other site 930169000590 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 930169000591 active site 930169000592 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 930169000593 metal binding site [ion binding]; metal-binding site 930169000594 substrate binding site [chemical binding]; other site 930169000595 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 930169000596 trimer interface [polypeptide binding]; other site 930169000597 active site 930169000598 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 930169000599 Flavoprotein; Region: Flavoprotein; pfam02441 930169000600 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 930169000601 hypothetical protein; Reviewed; Region: PRK00024 930169000602 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930169000603 MPN+ (JAMM) motif; other site 930169000604 Zinc-binding site [ion binding]; other site 930169000605 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 930169000606 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 930169000607 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 930169000608 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 930169000609 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 930169000610 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 930169000611 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 930169000612 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930169000613 AAA domain; Region: AAA_31; pfam13614 930169000614 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 930169000615 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 930169000616 ATP binding site [chemical binding]; other site 930169000617 Walker A motif; other site 930169000618 hexamer interface [polypeptide binding]; other site 930169000619 Walker B motif; other site 930169000620 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 930169000621 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 930169000622 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930169000623 TPR repeat; Region: TPR_11; pfam13414 930169000624 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 930169000625 binding surface 930169000626 TPR motif; other site 930169000627 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 930169000628 Predicted membrane protein [Function unknown]; Region: COG4655 930169000629 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 930169000630 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 930169000631 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169000632 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169000633 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169000634 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169000635 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169000636 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169000637 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 930169000638 NAD(P) binding site [chemical binding]; other site 930169000639 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169000640 DctM-like transporters; Region: DctM; pfam06808 930169000641 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169000642 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 930169000643 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 930169000644 putative active site [active] 930169000645 Fatty acid desaturase; Region: FA_desaturase; pfam00487 930169000646 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 930169000647 Di-iron ligands [ion binding]; other site 930169000648 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 930169000649 Transposase; Region: DDE_Tnp_ISL3; pfam01610 930169000650 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 930169000651 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 930169000652 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 930169000653 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 930169000654 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 930169000655 DNA binding site [nucleotide binding] 930169000656 catalytic residue [active] 930169000657 H2TH interface [polypeptide binding]; other site 930169000658 putative catalytic residues [active] 930169000659 turnover-facilitating residue; other site 930169000660 intercalation triad [nucleotide binding]; other site 930169000661 8OG recognition residue [nucleotide binding]; other site 930169000662 putative reading head residues; other site 930169000663 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 930169000664 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 930169000665 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169000666 multidrug efflux protein; Reviewed; Region: PRK09579 930169000667 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169000668 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169000669 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169000670 HemN family oxidoreductase; Provisional; Region: PRK05660 930169000671 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 930169000672 FeS/SAM binding site; other site 930169000673 HemN C-terminal domain; Region: HemN_C; pfam06969 930169000674 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 930169000675 active site 930169000676 dimerization interface [polypeptide binding]; other site 930169000677 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 930169000678 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 930169000679 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 930169000680 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169000681 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 930169000682 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 930169000683 ThiS interaction site; other site 930169000684 putative active site [active] 930169000685 tetramer interface [polypeptide binding]; other site 930169000686 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 930169000687 thiS-thiF/thiG interaction site; other site 930169000688 Protein of unknown function (DUF423); Region: DUF423; pfam04241 930169000689 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 930169000690 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169000691 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 930169000692 DNA binding residues [nucleotide binding] 930169000693 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 930169000694 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 930169000695 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 930169000696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169000697 Walker A/P-loop; other site 930169000698 ATP binding site [chemical binding]; other site 930169000699 Q-loop/lid; other site 930169000700 ABC transporter signature motif; other site 930169000701 Walker B; other site 930169000702 D-loop; other site 930169000703 H-loop/switch region; other site 930169000704 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 930169000705 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 930169000706 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 930169000707 P loop; other site 930169000708 GTP binding site [chemical binding]; other site 930169000709 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 930169000710 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 930169000711 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930169000712 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 930169000713 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930169000714 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 930169000715 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 930169000716 S-adenosylmethionine binding site [chemical binding]; other site 930169000717 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 930169000718 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930169000719 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930169000720 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 930169000721 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 930169000722 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 930169000723 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 930169000724 cytosine permease; Provisional; Region: codB; PRK11017 930169000725 Na binding site [ion binding]; other site 930169000726 cytosine deaminase; Provisional; Region: PRK09230 930169000727 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 930169000728 active site 930169000729 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 930169000730 putative efflux protein, MATE family; Region: matE; TIGR00797 930169000731 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 930169000732 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 930169000733 metal binding site [ion binding]; metal-binding site 930169000734 putative dimer interface [polypeptide binding]; other site 930169000735 S-formylglutathione hydrolase; Region: PLN02442 930169000736 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 930169000737 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 930169000738 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 930169000739 substrate binding site [chemical binding]; other site 930169000740 catalytic Zn binding site [ion binding]; other site 930169000741 NAD binding site [chemical binding]; other site 930169000742 structural Zn binding site [ion binding]; other site 930169000743 dimer interface [polypeptide binding]; other site 930169000744 LysR family transcriptional regulator; Provisional; Region: PRK14997 930169000745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169000746 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 930169000747 dimerization interface [polypeptide binding]; other site 930169000748 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 930169000749 putative deacylase active site [active] 930169000750 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 930169000751 FAD binding site [chemical binding]; other site 930169000752 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 930169000753 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 930169000754 homotetramer interface [polypeptide binding]; other site 930169000755 ligand binding site [chemical binding]; other site 930169000756 catalytic site [active] 930169000757 NAD binding site [chemical binding]; other site 930169000758 four helix bundle protein; Region: TIGR02436 930169000759 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 930169000760 S-adenosylmethionine synthetase; Validated; Region: PRK05250 930169000761 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 930169000762 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 930169000763 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 930169000764 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 930169000765 dimerization interface [polypeptide binding]; other site 930169000766 putative DNA binding site [nucleotide binding]; other site 930169000767 putative Zn2+ binding site [ion binding]; other site 930169000768 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169000769 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 930169000770 S-adenosylmethionine binding site [chemical binding]; other site 930169000771 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 930169000772 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 930169000773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 930169000774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 930169000775 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 930169000776 PAS domain; Region: PAS; smart00091 930169000777 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 930169000778 ATP binding site [chemical binding]; other site 930169000779 Mg2+ binding site [ion binding]; other site 930169000780 G-X-G motif; other site 930169000781 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 930169000782 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 930169000783 active site 930169000784 phosphorylation site [posttranslational modification] 930169000785 intermolecular recognition site; other site 930169000786 dimerization interface [polypeptide binding]; other site 930169000787 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000788 transketolase; Reviewed; Region: PRK12753 930169000789 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 930169000790 TPP-binding site [chemical binding]; other site 930169000791 dimer interface [polypeptide binding]; other site 930169000792 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 930169000793 PYR/PP interface [polypeptide binding]; other site 930169000794 dimer interface [polypeptide binding]; other site 930169000795 TPP binding site [chemical binding]; other site 930169000796 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 930169000797 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 930169000798 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 930169000799 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 930169000800 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 930169000801 Phosphoglycerate kinase; Region: PGK; pfam00162 930169000802 substrate binding site [chemical binding]; other site 930169000803 hinge regions; other site 930169000804 ADP binding site [chemical binding]; other site 930169000805 catalytic site [active] 930169000806 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 930169000807 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 930169000808 intersubunit interface [polypeptide binding]; other site 930169000809 active site 930169000810 zinc binding site [ion binding]; other site 930169000811 Na+ binding site [ion binding]; other site 930169000812 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169000813 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169000814 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 930169000815 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169000816 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 930169000817 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930169000818 active site 930169000819 dimer interface [polypeptide binding]; other site 930169000820 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169000821 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169000822 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169000823 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169000824 DctM-like transporters; Region: DctM; pfam06808 930169000825 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 930169000826 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 930169000827 dimer interface [polypeptide binding]; other site 930169000828 phosphorylation site [posttranslational modification] 930169000829 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 930169000830 ATP binding site [chemical binding]; other site 930169000831 Mg2+ binding site [ion binding]; other site 930169000832 G-X-G motif; other site 930169000833 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 930169000834 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 930169000835 active site 930169000836 phosphorylation site [posttranslational modification] 930169000837 intermolecular recognition site; other site 930169000838 dimerization interface [polypeptide binding]; other site 930169000839 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 930169000840 Walker A motif; other site 930169000841 ATP binding site [chemical binding]; other site 930169000842 Walker B motif; other site 930169000843 arginine finger; other site 930169000844 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169000845 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169000846 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000847 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000848 threonine dehydratase; Reviewed; Region: PRK09224 930169000849 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 930169000850 tetramer interface [polypeptide binding]; other site 930169000851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169000852 catalytic residue [active] 930169000853 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 930169000854 putative Ile/Val binding site [chemical binding]; other site 930169000855 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 930169000856 putative Ile/Val binding site [chemical binding]; other site 930169000857 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 930169000858 Cell division protein ZapA; Region: ZapA; pfam05164 930169000859 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 930169000860 proline aminopeptidase P II; Provisional; Region: PRK10879 930169000861 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 930169000862 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 930169000863 active site 930169000864 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 930169000865 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169000866 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 930169000867 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169000868 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 930169000869 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 930169000870 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 930169000871 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 930169000872 dimer interface [polypeptide binding]; other site 930169000873 conserved gate region; other site 930169000874 putative PBP binding loops; other site 930169000875 ABC-ATPase subunit interface; other site 930169000876 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 930169000877 dimer interface [polypeptide binding]; other site 930169000878 conserved gate region; other site 930169000879 putative PBP binding loops; other site 930169000880 ABC-ATPase subunit interface; other site 930169000881 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169000882 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000883 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000884 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000885 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169000886 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169000887 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 930169000888 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169000889 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169000890 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169000891 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 930169000892 N-terminal plug; other site 930169000893 ligand-binding site [chemical binding]; other site 930169000894 fec operon regulator FecR; Reviewed; Region: PRK09774 930169000895 FecR protein; Region: FecR; pfam04773 930169000896 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169000897 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169000898 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 930169000899 DNA binding residues [nucleotide binding] 930169000900 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 930169000901 POPLD (NUC188) domain; Region: POPLD; pfam08170 930169000902 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 930169000903 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 930169000904 lipoyl attachment site [posttranslational modification]; other site 930169000905 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 930169000906 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 930169000907 tetramer interface [polypeptide binding]; other site 930169000908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169000909 catalytic residue [active] 930169000910 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 930169000911 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 930169000912 tetramer interface [polypeptide binding]; other site 930169000913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169000914 catalytic residue [active] 930169000915 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 930169000916 AAA domain; Region: AAA_21; pfam13304 930169000917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169000918 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 930169000919 RES domain; Region: RES; pfam08808 930169000920 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 930169000921 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 930169000922 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 930169000923 putative NAD(P) binding site [chemical binding]; other site 930169000924 catalytic Zn binding site [ion binding]; other site 930169000925 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 930169000926 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 930169000927 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 930169000928 active site 2 [active] 930169000929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169000930 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169000931 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169000932 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 930169000933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169000934 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 930169000935 Predicted acetyltransferase [General function prediction only]; Region: COG3153 930169000936 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 930169000937 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 930169000938 putative molybdopterin cofactor binding site [chemical binding]; other site 930169000939 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 930169000940 putative molybdopterin cofactor binding site; other site 930169000941 Uncharacterized conserved protein [Function unknown]; Region: COG3791 930169000942 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 930169000943 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 930169000944 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 930169000945 putative trimer interface [polypeptide binding]; other site 930169000946 putative CoA binding site [chemical binding]; other site 930169000947 Transposase; Region: HTH_Tnp_1; cl17663 930169000948 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169000949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169000950 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169000951 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169000952 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169000953 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169000954 B12 binding domain; Region: B12-binding; pfam02310 930169000955 Radical SAM superfamily; Region: Radical_SAM; pfam04055 930169000956 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169000957 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169000958 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169000959 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169000960 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 930169000961 N-terminal plug; other site 930169000962 ligand-binding site [chemical binding]; other site 930169000963 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169000964 FecR protein; Region: FecR; pfam04773 930169000965 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169000966 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169000967 DNA binding residues [nucleotide binding] 930169000968 YcaO domain protein; Region: TIGR03549 930169000969 OsmC-like protein; Region: OsmC; pfam02566 930169000970 YcaO-like family; Region: YcaO; pfam02624 930169000971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 930169000972 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 930169000973 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 930169000974 putative active site [active] 930169000975 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169000976 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 930169000977 putative C-terminal domain interface [polypeptide binding]; other site 930169000978 putative GSH binding site (G-site) [chemical binding]; other site 930169000979 putative dimer interface [polypeptide binding]; other site 930169000980 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 930169000981 dimer interface [polypeptide binding]; other site 930169000982 N-terminal domain interface [polypeptide binding]; other site 930169000983 putative substrate binding pocket (H-site) [chemical binding]; other site 930169000984 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 930169000985 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 930169000986 active site 930169000987 Zn binding site [ion binding]; other site 930169000988 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169000989 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 930169000990 DNA binding residues [nucleotide binding] 930169000991 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169000992 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 930169000993 putative NAD(P) binding site [chemical binding]; other site 930169000994 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169000995 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 930169000996 putative substrate translocation pore; other site 930169000997 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 930169000998 S-adenosylmethionine binding site [chemical binding]; other site 930169000999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 930169001000 putative transposase OrfB; Reviewed; Region: PHA02517 930169001001 HTH-like domain; Region: HTH_21; pfam13276 930169001002 Integrase core domain; Region: rve; pfam00665 930169001003 Integrase core domain; Region: rve_3; pfam13683 930169001004 Ion transport protein; Region: Ion_trans; pfam00520 930169001005 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 930169001006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 930169001007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169001008 Coenzyme A binding pocket [chemical binding]; other site 930169001009 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 930169001010 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 930169001011 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930169001012 substrate binding pocket [chemical binding]; other site 930169001013 Ion channel; Region: Ion_trans_2; pfam07885 930169001014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930169001015 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 930169001016 membrane-bound complex binding site; other site 930169001017 hinge residues; other site 930169001018 putative S-transferase; Provisional; Region: PRK11752 930169001019 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 930169001020 C-terminal domain interface [polypeptide binding]; other site 930169001021 GSH binding site (G-site) [chemical binding]; other site 930169001022 dimer interface [polypeptide binding]; other site 930169001023 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 930169001024 dimer interface [polypeptide binding]; other site 930169001025 N-terminal domain interface [polypeptide binding]; other site 930169001026 active site 930169001027 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 930169001028 active site 930169001029 OsmC-like protein; Region: OsmC; pfam02566 930169001030 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169001031 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 930169001032 putative C-terminal domain interface [polypeptide binding]; other site 930169001033 putative GSH binding site (G-site) [chemical binding]; other site 930169001034 putative dimer interface [polypeptide binding]; other site 930169001035 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 930169001036 N-terminal domain interface [polypeptide binding]; other site 930169001037 dimer interface [polypeptide binding]; other site 930169001038 substrate binding pocket (H-site) [chemical binding]; other site 930169001039 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 930169001040 hypothetical protein; Provisional; Region: PRK09040 930169001041 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169001042 ligand binding site [chemical binding]; other site 930169001043 Domain of unknown function (DUF802); Region: DUF802; pfam05650 930169001044 Domain of unknown function (DUF802); Region: DUF802; pfam05650 930169001045 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 930169001046 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169001047 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169001048 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 930169001049 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 930169001050 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169001051 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169001052 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169001053 active site 930169001054 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 930169001055 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 930169001056 BON domain; Region: BON; pfam04972 930169001057 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169001058 Protein of unknown function, DUF481; Region: DUF481; pfam04338 930169001059 Predicted ATPase [General function prediction only]; Region: COG4637 930169001060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169001061 Walker A/P-loop; other site 930169001062 ATP binding site [chemical binding]; other site 930169001063 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 930169001064 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 930169001065 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 930169001066 putative catalytic residue [active] 930169001067 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 930169001068 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 930169001069 C-terminal domain interface [polypeptide binding]; other site 930169001070 GSH binding site (G-site) [chemical binding]; other site 930169001071 dimer interface [polypeptide binding]; other site 930169001072 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 930169001073 N-terminal domain interface [polypeptide binding]; other site 930169001074 putative dimer interface [polypeptide binding]; other site 930169001075 active site 930169001076 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169001077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169001078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 930169001079 SnoaL-like domain; Region: SnoaL_2; pfam12680 930169001080 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 930169001081 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169001082 dimer interface [polypeptide binding]; other site 930169001083 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169001084 Predicted flavoprotein [General function prediction only]; Region: COG0431 930169001085 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 930169001086 haloalkane dehalogenase; Provisional; Region: PRK03592 930169001087 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 930169001088 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 930169001089 PhnA protein; Region: PhnA; pfam03831 930169001090 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 930169001091 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 930169001092 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169001093 active site 930169001094 catalytic tetrad [active] 930169001095 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 930169001096 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 930169001097 putative active site [active] 930169001098 catalytic site [active] 930169001099 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 930169001100 putative active site [active] 930169001101 catalytic site [active] 930169001102 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 930169001103 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169001104 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169001105 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169001106 DctM-like transporters; Region: DctM; pfam06808 930169001107 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 930169001108 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169001109 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 930169001110 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169001111 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169001112 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169001113 active site 930169001114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 930169001115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 930169001116 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 930169001117 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 930169001118 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169001119 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169001120 aspartate aminotransferase; Provisional; Region: PRK05764 930169001121 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 930169001122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169001123 homodimer interface [polypeptide binding]; other site 930169001124 catalytic residue [active] 930169001125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 930169001126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 930169001127 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169001128 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 930169001129 dimer interface [polypeptide binding]; other site 930169001130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169001131 active site 930169001132 metal binding site [ion binding]; metal-binding site 930169001133 glutathione binding site [chemical binding]; other site 930169001134 amidase; Provisional; Region: PRK06170 930169001135 Amidase; Region: Amidase; pfam01425 930169001136 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169001137 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169001138 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 930169001139 DctM-like transporters; Region: DctM; pfam06808 930169001140 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 930169001141 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 930169001142 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169001143 dimer interface [polypeptide binding]; other site 930169001144 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 930169001145 SnoaL-like domain; Region: SnoaL_2; pfam12680 930169001146 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 930169001147 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 930169001148 trimer interface [polypeptide binding]; other site 930169001149 putative metal binding site [ion binding]; other site 930169001150 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169001151 sensor protein PhoQ; Provisional; Region: PRK10815 930169001152 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 930169001153 dimer interface [polypeptide binding]; other site 930169001154 phosphorylation site [posttranslational modification] 930169001155 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 930169001156 ATP binding site [chemical binding]; other site 930169001157 G-X-G motif; other site 930169001158 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 930169001159 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 930169001160 active site 930169001161 phosphorylation site [posttranslational modification] 930169001162 intermolecular recognition site; other site 930169001163 dimerization interface [polypeptide binding]; other site 930169001164 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 930169001165 DNA binding site [nucleotide binding] 930169001166 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169001167 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 930169001168 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 930169001169 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 930169001170 dimer interface [polypeptide binding]; other site 930169001171 acyl-activating enzyme (AAE) consensus motif; other site 930169001172 putative active site [active] 930169001173 AMP binding site [chemical binding]; other site 930169001174 putative CoA binding site [chemical binding]; other site 930169001175 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 930169001176 Putative exonuclease, RdgC; Region: RdgC; pfam04381 930169001177 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 930169001178 putative hydrophobic ligand binding site [chemical binding]; other site 930169001179 protein interface [polypeptide binding]; other site 930169001180 gate; other site 930169001181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 930169001182 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 930169001183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169001184 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169001185 YCII-related domain; Region: YCII; cl00999 930169001186 SnoaL-like domain; Region: SnoaL_2; pfam12680 930169001187 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 930169001188 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 930169001189 NAD binding site [chemical binding]; other site 930169001190 catalytic Zn binding site [ion binding]; other site 930169001191 substrate binding site [chemical binding]; other site 930169001192 structural Zn binding site [ion binding]; other site 930169001193 hypothetical protein; Provisional; Region: PRK10621 930169001194 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930169001195 Predicted metalloprotease [General function prediction only]; Region: COG2321 930169001196 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 930169001197 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169001198 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169001199 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169001200 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169001201 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169001202 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169001203 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 930169001204 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 930169001205 Protein phosphatase 2C; Region: PP2C; pfam00481 930169001206 active site 930169001207 Protein kinase domain; Region: Pkinase; pfam00069 930169001208 Catalytic domain of Protein Kinases; Region: PKc; cd00180 930169001209 active site 930169001210 ATP binding site [chemical binding]; other site 930169001211 substrate binding site [chemical binding]; other site 930169001212 activation loop (A-loop); other site 930169001213 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 930169001214 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 930169001215 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 930169001216 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169001217 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 930169001218 C-terminal domain interface [polypeptide binding]; other site 930169001219 GSH binding site (G-site) [chemical binding]; other site 930169001220 dimer interface [polypeptide binding]; other site 930169001221 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 930169001222 dimer interface [polypeptide binding]; other site 930169001223 N-terminal domain interface [polypeptide binding]; other site 930169001224 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 930169001225 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 930169001226 DNA binding site [nucleotide binding] 930169001227 active site 930169001228 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169001229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169001230 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 930169001231 dimerization interface [polypeptide binding]; other site 930169001232 substrate binding pocket [chemical binding]; other site 930169001233 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 930169001234 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 930169001235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001237 AlkA N-terminal domain; Region: AlkA_N; pfam06029 930169001238 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 930169001239 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930169001240 minor groove reading motif; other site 930169001241 helix-hairpin-helix signature motif; other site 930169001242 active site 930169001243 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 930169001244 DNA binding site [nucleotide binding] 930169001245 active site 930169001246 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 930169001247 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169001248 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 930169001249 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169001250 putative substrate translocation pore; other site 930169001251 Phosphotransferase enzyme family; Region: APH; pfam01636 930169001252 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 930169001253 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 930169001254 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 930169001255 ATP binding site [chemical binding]; other site 930169001256 putative Mg++ binding site [ion binding]; other site 930169001257 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 930169001258 nucleotide binding region [chemical binding]; other site 930169001259 ATP-binding site [chemical binding]; other site 930169001260 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 930169001261 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 930169001262 putative RNA binding site [nucleotide binding]; other site 930169001263 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 930169001264 S-adenosylmethionine binding site [chemical binding]; other site 930169001265 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930169001266 Predicted metal-binding protein [General function prediction only]; Region: COG3019 930169001267 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 930169001268 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169001269 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 930169001270 S-adenosylmethionine binding site [chemical binding]; other site 930169001271 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 930169001272 copper exporting ATPase; Provisional; Region: copA; PRK10671 930169001273 metal-binding site [ion binding] 930169001274 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 930169001275 metal-binding site [ion binding] 930169001276 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930169001277 Soluble P-type ATPase [General function prediction only]; Region: COG4087 930169001278 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 930169001279 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930169001280 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 930169001281 putative active site [active] 930169001282 Ap4A binding site [chemical binding]; other site 930169001283 nudix motif; other site 930169001284 putative metal binding site [ion binding]; other site 930169001285 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 930169001286 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 930169001287 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 930169001288 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930169001289 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 930169001290 NRDE protein; Region: NRDE; cl01315 930169001291 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930169001292 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 930169001293 thymidylate synthase; Reviewed; Region: thyA; PRK01827 930169001294 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 930169001295 dimerization interface [polypeptide binding]; other site 930169001296 active site 930169001297 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 930169001298 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 930169001299 folate binding site [chemical binding]; other site 930169001300 NADP+ binding site [chemical binding]; other site 930169001301 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169001302 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 930169001303 non-specific DNA binding site [nucleotide binding]; other site 930169001304 salt bridge; other site 930169001305 sequence-specific DNA binding site [nucleotide binding]; other site 930169001306 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 930169001307 sequence-specific DNA binding site [nucleotide binding]; other site 930169001308 salt bridge; other site 930169001309 DNA methylase; Region: N6_N4_Mtase; cl17433 930169001310 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 930169001311 DNA methylase; Region: N6_N4_Mtase; cl17433 930169001312 DNA methylase; Region: N6_N4_Mtase; pfam01555 930169001313 Hemin uptake protein hemP; Region: hemP; pfam10636 930169001314 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 930169001315 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 930169001316 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 930169001317 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169001318 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169001319 ABC transporter; Region: ABC_tran_2; pfam12848 930169001320 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169001321 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 930169001322 hypothetical protein; Provisional; Region: PRK02237 930169001323 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 930169001324 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169001325 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169001326 active site 930169001327 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169001328 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001329 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169001330 acyl-activating enzyme (AAE) consensus motif; other site 930169001331 acyl-activating enzyme (AAE) consensus motif; other site 930169001332 putative AMP binding site [chemical binding]; other site 930169001333 putative active site [active] 930169001334 putative CoA binding site [chemical binding]; other site 930169001335 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169001336 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169001337 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169001338 active site 930169001339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169001340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001341 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 930169001342 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 930169001343 inhibitor-cofactor binding pocket; inhibition site 930169001344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169001345 catalytic residue [active] 930169001346 putative transposase OrfB; Reviewed; Region: PHA02517 930169001347 Integrase core domain; Region: rve; pfam00665 930169001348 Integrase core domain; Region: rve_3; pfam13683 930169001349 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 930169001350 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169001351 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 930169001352 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169001353 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930169001354 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 930169001355 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 930169001356 carboxyltransferase (CT) interaction site; other site 930169001357 biotinylation site [posttranslational modification]; other site 930169001358 enoyl-CoA hydratase; Provisional; Region: PRK05995 930169001359 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 930169001360 substrate binding site [chemical binding]; other site 930169001361 oxyanion hole (OAH) forming residues; other site 930169001362 trimer interface [polypeptide binding]; other site 930169001363 acyl-CoA synthetase; Validated; Region: PRK08316 930169001364 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001365 acyl-activating enzyme (AAE) consensus motif; other site 930169001366 AMP binding site [chemical binding]; other site 930169001367 active site 930169001368 CoA binding site [chemical binding]; other site 930169001369 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 930169001370 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 930169001371 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930169001372 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 930169001373 LrgB-like family; Region: LrgB; pfam04172 930169001374 LrgA family; Region: LrgA; pfam03788 930169001375 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 930169001376 glutamate--cysteine ligase; Provisional; Region: PRK02107 930169001377 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 930169001378 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 930169001379 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 930169001380 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 930169001381 RNA binding site [nucleotide binding]; other site 930169001382 Response regulator receiver domain; Region: Response_reg; pfam00072 930169001383 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 930169001384 active site 930169001385 phosphorylation site [posttranslational modification] 930169001386 intermolecular recognition site; other site 930169001387 dimerization interface [polypeptide binding]; other site 930169001388 osmolarity response regulator; Provisional; Region: ompR; PRK09468 930169001389 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 930169001390 active site 930169001391 phosphorylation site [posttranslational modification] 930169001392 intermolecular recognition site; other site 930169001393 dimerization interface [polypeptide binding]; other site 930169001394 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 930169001395 DNA binding site [nucleotide binding] 930169001396 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 930169001397 HAMP domain; Region: HAMP; pfam00672 930169001398 dimerization interface [polypeptide binding]; other site 930169001399 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 930169001400 dimer interface [polypeptide binding]; other site 930169001401 phosphorylation site [posttranslational modification] 930169001402 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 930169001403 ATP binding site [chemical binding]; other site 930169001404 Mg2+ binding site [ion binding]; other site 930169001405 G-X-G motif; other site 930169001406 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 930169001407 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169001408 putative substrate translocation pore; other site 930169001409 YcxB-like protein; Region: YcxB; pfam14317 930169001410 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 930169001411 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 930169001412 Uncharacterized conserved protein [Function unknown]; Region: COG2128 930169001413 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 930169001414 Uncharacterized conserved protein [Function unknown]; Region: COG2128 930169001415 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 930169001416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169001417 DNA-binding site [nucleotide binding]; DNA binding site 930169001418 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 930169001419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169001420 homodimer interface [polypeptide binding]; other site 930169001421 catalytic residue [active] 930169001422 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 930169001423 active site 930169001424 metal binding site [ion binding]; metal-binding site 930169001425 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 930169001426 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 930169001427 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169001428 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 930169001429 C-terminal domain interface [polypeptide binding]; other site 930169001430 GSH binding site (G-site) [chemical binding]; other site 930169001431 dimer interface [polypeptide binding]; other site 930169001432 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 930169001433 N-terminal domain interface [polypeptide binding]; other site 930169001434 dimer interface [polypeptide binding]; other site 930169001435 substrate binding pocket (H-site) [chemical binding]; other site 930169001436 short chain dehydrogenase; Provisional; Region: PRK06172 930169001437 classical (c) SDRs; Region: SDR_c; cd05233 930169001438 NAD(P) binding site [chemical binding]; other site 930169001439 active site 930169001440 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 930169001441 CoenzymeA binding site [chemical binding]; other site 930169001442 subunit interaction site [polypeptide binding]; other site 930169001443 PHB binding site; other site 930169001444 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 930169001445 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169001446 CoenzymeA binding site [chemical binding]; other site 930169001447 subunit interaction site [polypeptide binding]; other site 930169001448 PHB binding site; other site 930169001449 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169001450 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169001451 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 930169001452 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169001453 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 930169001454 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169001455 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169001456 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169001457 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 930169001458 DNA binding residues [nucleotide binding] 930169001459 fec operon regulator FecR; Reviewed; Region: PRK09774 930169001460 FecR protein; Region: FecR; pfam04773 930169001461 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169001462 putative outer membrane receptor; Provisional; Region: PRK13513 930169001463 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 930169001464 N-terminal plug; other site 930169001465 ligand-binding site [chemical binding]; other site 930169001466 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 930169001467 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 930169001468 Trp docking motif [polypeptide binding]; other site 930169001469 putative active site [active] 930169001470 Transglycosylase SLT domain; Region: SLT_2; pfam13406 930169001471 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 930169001472 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169001473 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 930169001474 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 930169001475 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 930169001476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169001477 AMP-binding domain protein; Validated; Region: PRK08315 930169001478 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001479 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 930169001480 acyl-activating enzyme (AAE) consensus motif; other site 930169001481 putative AMP binding site [chemical binding]; other site 930169001482 putative active site [active] 930169001483 putative CoA binding site [chemical binding]; other site 930169001484 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 930169001485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001486 acyl-activating enzyme (AAE) consensus motif; other site 930169001487 AMP binding site [chemical binding]; other site 930169001488 active site 930169001489 CoA binding site [chemical binding]; other site 930169001490 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 930169001491 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169001492 NAD(P) binding site [chemical binding]; other site 930169001493 catalytic residues [active] 930169001494 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 930169001495 Cytochrome c; Region: Cytochrom_C; cl11414 930169001496 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 930169001497 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169001498 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169001499 Methylamine utilisation protein MauE; Region: MauE; pfam07291 930169001500 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 930169001501 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 930169001502 HTH domain; Region: HTH_11; cl17392 930169001503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001504 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 930169001505 Sel1-like repeats; Region: SEL1; smart00671 930169001506 Sel1-like repeats; Region: SEL1; smart00671 930169001507 Sel1 repeat; Region: Sel1; cl02723 930169001508 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 930169001509 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 930169001510 active site 930169001511 substrate-binding site [chemical binding]; other site 930169001512 metal-binding site [ion binding] 930169001513 ATP binding site [chemical binding]; other site 930169001514 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 930169001515 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 930169001516 dimerization interface [polypeptide binding]; other site 930169001517 domain crossover interface; other site 930169001518 redox-dependent activation switch; other site 930169001519 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 930169001520 RNA binding surface [nucleotide binding]; other site 930169001521 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 930169001522 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 930169001523 motif II; other site 930169001524 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 930169001525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169001526 DNA-binding site [nucleotide binding]; DNA binding site 930169001527 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 930169001528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169001529 homodimer interface [polypeptide binding]; other site 930169001530 catalytic residue [active] 930169001531 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 930169001532 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 930169001533 ADP-ribose binding site [chemical binding]; other site 930169001534 dimer interface [polypeptide binding]; other site 930169001535 active site 930169001536 nudix motif; other site 930169001537 metal binding site [ion binding]; metal-binding site 930169001538 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 930169001539 active site 930169001540 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169001541 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169001542 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 930169001543 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169001544 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 930169001545 ligand binding site [chemical binding]; other site 930169001546 flexible hinge region; other site 930169001547 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 930169001548 putative switch regulator; other site 930169001549 non-specific DNA interactions [nucleotide binding]; other site 930169001550 DNA binding site [nucleotide binding] 930169001551 sequence specific DNA binding site [nucleotide binding]; other site 930169001552 putative cAMP binding site [chemical binding]; other site 930169001553 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 930169001554 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 930169001555 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169001556 putative active site [active] 930169001557 putative metal binding site [ion binding]; other site 930169001558 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 930169001559 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169001560 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 930169001561 active site 930169001562 metal binding site [ion binding]; metal-binding site 930169001563 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 930169001564 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169001565 MarR family; Region: MarR_2; pfam12802 930169001566 MarR family; Region: MarR_2; cl17246 930169001567 Uncharacterized conserved protein [Function unknown]; Region: COG3391 930169001568 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 930169001569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001570 acyl-activating enzyme (AAE) consensus motif; other site 930169001571 AMP binding site [chemical binding]; other site 930169001572 active site 930169001573 CoA binding site [chemical binding]; other site 930169001574 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 930169001575 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 930169001576 dimer interface [polypeptide binding]; other site 930169001577 conserved gate region; other site 930169001578 ABC-ATPase subunit interface; other site 930169001579 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930169001580 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 930169001581 dimer interface [polypeptide binding]; other site 930169001582 conserved gate region; other site 930169001583 putative PBP binding loops; other site 930169001584 ABC-ATPase subunit interface; other site 930169001585 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 930169001586 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 930169001587 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 930169001588 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169001589 Walker A/P-loop; other site 930169001590 ATP binding site [chemical binding]; other site 930169001591 Q-loop/lid; other site 930169001592 ABC transporter signature motif; other site 930169001593 Walker B; other site 930169001594 D-loop; other site 930169001595 H-loop/switch region; other site 930169001596 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169001597 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 930169001598 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169001599 Walker A/P-loop; other site 930169001600 ATP binding site [chemical binding]; other site 930169001601 Q-loop/lid; other site 930169001602 ABC transporter signature motif; other site 930169001603 Walker B; other site 930169001604 D-loop; other site 930169001605 H-loop/switch region; other site 930169001606 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169001607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169001608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169001609 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 930169001610 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169001611 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169001612 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930169001613 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 930169001614 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 930169001615 carboxyltransferase (CT) interaction site; other site 930169001616 biotinylation site [posttranslational modification]; other site 930169001617 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 930169001618 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 930169001619 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169001620 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_7; cd12166 930169001621 putative ligand binding site [chemical binding]; other site 930169001622 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 930169001623 putative NAD binding site [chemical binding]; other site 930169001624 catalytic site [active] 930169001625 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 930169001626 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169001627 catalytic residue [active] 930169001628 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 930169001629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169001630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169001631 short chain dehydrogenase; Provisional; Region: PRK05650 930169001632 classical (c) SDRs; Region: SDR_c; cd05233 930169001633 NAD(P) binding site [chemical binding]; other site 930169001634 active site 930169001635 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 930169001636 dinuclear metal binding motif [ion binding]; other site 930169001637 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169001638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169001639 CcdB protein; Region: CcdB; cl03380 930169001640 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 930169001641 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169001642 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169001643 active site 930169001644 CHAD domain; Region: CHAD; pfam05235 930169001645 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169001646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169001647 Putative esterase; Region: Esterase; pfam00756 930169001648 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 930169001649 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 930169001650 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 930169001651 N-terminal plug; other site 930169001652 ligand-binding site [chemical binding]; other site 930169001653 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169001654 FecR protein; Region: FecR; pfam04773 930169001655 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 930169001656 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169001657 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 930169001658 DNA binding residues [nucleotide binding] 930169001659 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 930169001660 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 930169001661 phosphoserine phosphatase SerB; Region: serB; TIGR00338 930169001662 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 930169001663 motif II; other site 930169001664 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 930169001665 nucleotidyl binding site; other site 930169001666 metal binding site [ion binding]; metal-binding site 930169001667 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169001668 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 930169001669 Coenzyme A binding pocket [chemical binding]; other site 930169001670 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 930169001671 putative active site pocket [active] 930169001672 4-fold oligomerization interface [polypeptide binding]; other site 930169001673 metal binding residues [ion binding]; metal-binding site 930169001674 3-fold/trimer interface [polypeptide binding]; other site 930169001675 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 930169001676 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 930169001677 putative active site [active] 930169001678 oxyanion strand; other site 930169001679 catalytic triad [active] 930169001680 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 930169001681 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 930169001682 catalytic residues [active] 930169001683 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 930169001684 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 930169001685 substrate binding site [chemical binding]; other site 930169001686 glutamase interaction surface [polypeptide binding]; other site 930169001687 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 930169001688 hypothetical protein; Provisional; Region: PRK09256 930169001689 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 930169001690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 930169001691 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 930169001692 Sodium Bile acid symporter family; Region: SBF; pfam01758 930169001693 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 930169001694 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 930169001695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 930169001696 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169001697 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930169001698 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 930169001699 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 930169001700 [4Fe-4S] binding site [ion binding]; other site 930169001701 molybdopterin cofactor binding site; other site 930169001702 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 930169001703 molybdopterin cofactor binding site; other site 930169001704 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930169001705 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 930169001706 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 930169001707 GTP binding site; other site 930169001708 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 930169001709 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 930169001710 FeS/SAM binding site; other site 930169001711 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 930169001712 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 930169001713 MoaE homodimer interface [polypeptide binding]; other site 930169001714 MoaD interaction [polypeptide binding]; other site 930169001715 active site residues [active] 930169001716 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 930169001717 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 930169001718 trimer interface [polypeptide binding]; other site 930169001719 dimer interface [polypeptide binding]; other site 930169001720 putative active site [active] 930169001721 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 930169001722 MPT binding site; other site 930169001723 trimer interface [polypeptide binding]; other site 930169001724 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 930169001725 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 930169001726 dimer interface [polypeptide binding]; other site 930169001727 putative functional site; other site 930169001728 putative MPT binding site; other site 930169001729 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 930169001730 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 930169001731 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 930169001732 protein binding site [polypeptide binding]; other site 930169001733 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 930169001734 Catalytic dyad [active] 930169001735 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 930169001736 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169001737 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 930169001738 active site residue [active] 930169001739 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 930169001740 GSH binding site [chemical binding]; other site 930169001741 catalytic residues [active] 930169001742 preprotein translocase subunit SecB; Validated; Region: PRK05751 930169001743 SecA binding site; other site 930169001744 Preprotein binding site; other site 930169001745 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 930169001746 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 930169001747 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 930169001748 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 930169001749 G1 box; other site 930169001750 putative GEF interaction site [polypeptide binding]; other site 930169001751 GTP/Mg2+ binding site [chemical binding]; other site 930169001752 Switch I region; other site 930169001753 G2 box; other site 930169001754 G3 box; other site 930169001755 Switch II region; other site 930169001756 G4 box; other site 930169001757 G5 box; other site 930169001758 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 930169001759 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 930169001760 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 930169001761 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 930169001762 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 930169001763 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 930169001764 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 930169001765 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 930169001766 Ligand Binding Site [chemical binding]; other site 930169001767 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 930169001768 CPxP motif; other site 930169001769 glutamine synthetase; Provisional; Region: glnA; PRK09469 930169001770 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 930169001771 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 930169001772 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 930169001773 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 930169001774 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 930169001775 putative active site [active] 930169001776 heme pocket [chemical binding]; other site 930169001777 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 930169001778 dimer interface [polypeptide binding]; other site 930169001779 phosphorylation site [posttranslational modification] 930169001780 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 930169001781 ATP binding site [chemical binding]; other site 930169001782 Mg2+ binding site [ion binding]; other site 930169001783 G-X-G motif; other site 930169001784 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 930169001785 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 930169001786 active site 930169001787 phosphorylation site [posttranslational modification] 930169001788 intermolecular recognition site; other site 930169001789 dimerization interface [polypeptide binding]; other site 930169001790 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 930169001791 Walker A motif; other site 930169001792 ATP binding site [chemical binding]; other site 930169001793 Walker B motif; other site 930169001794 arginine finger; other site 930169001795 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169001796 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 930169001797 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169001798 TAP-like protein; Region: Abhydrolase_4; pfam08386 930169001799 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 930169001800 putative active site [active] 930169001801 dimerization interface [polypeptide binding]; other site 930169001802 putative tRNAtyr binding site [nucleotide binding]; other site 930169001803 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 930169001804 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 930169001805 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169001806 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 930169001807 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 930169001808 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 930169001809 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 930169001810 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 930169001811 metal binding site [ion binding]; metal-binding site 930169001812 ABC1 family; Region: ABC1; cl17513 930169001813 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 930169001814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 930169001815 SCP-2 sterol transfer family; Region: SCP2; pfam02036 930169001816 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 930169001817 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 930169001818 S-adenosylmethionine binding site [chemical binding]; other site 930169001819 N-acetylglutamate synthase; Validated; Region: PRK05279 930169001820 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 930169001821 putative feedback inhibition sensing region; other site 930169001822 putative nucleotide binding site [chemical binding]; other site 930169001823 putative substrate binding site [chemical binding]; other site 930169001824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169001825 Coenzyme A binding pocket [chemical binding]; other site 930169001826 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 930169001827 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 930169001828 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 930169001829 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 930169001830 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 930169001831 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 930169001832 Walker A motif; other site 930169001833 ATP binding site [chemical binding]; other site 930169001834 Walker B motif; other site 930169001835 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 930169001836 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930169001837 metal binding triad; other site 930169001838 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930169001839 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930169001840 metal binding triad; other site 930169001841 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930169001842 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930169001843 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 930169001844 homodimer interface [polypeptide binding]; other site 930169001845 substrate-cofactor binding pocket; other site 930169001846 catalytic residue [active] 930169001847 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 930169001848 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 930169001849 putative active site [active] 930169001850 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 930169001851 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 930169001852 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 930169001853 putative active site [active] 930169001854 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169001855 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 930169001856 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 930169001857 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930169001858 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 930169001859 active site 930169001860 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 930169001861 active site 930169001862 ATP binding site [chemical binding]; other site 930169001863 serine/threonine protein kinase; Provisional; Region: PRK14879 930169001864 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169001865 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 930169001866 O-Antigen ligase; Region: Wzy_C; pfam04932 930169001867 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 930169001868 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 930169001869 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930169001870 putative acyl-acceptor binding pocket; other site 930169001871 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 930169001872 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 930169001873 putative ribose interaction site [chemical binding]; other site 930169001874 putative ADP binding site [chemical binding]; other site 930169001875 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 930169001876 active site 930169001877 nucleotide binding site [chemical binding]; other site 930169001878 HIGH motif; other site 930169001879 KMSKS motif; other site 930169001880 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169001881 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169001882 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001883 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169001884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169001885 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 930169001886 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169001887 active site 930169001888 catalytic tetrad [active] 930169001889 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 930169001890 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 930169001891 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 930169001892 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 930169001893 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 930169001894 ThiC-associated domain; Region: ThiC-associated; pfam13667 930169001895 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 930169001896 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 930169001897 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 930169001898 dimer interface [polypeptide binding]; other site 930169001899 ADP-ribose binding site [chemical binding]; other site 930169001900 active site 930169001901 nudix motif; other site 930169001902 metal binding site [ion binding]; metal-binding site 930169001903 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 930169001904 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 930169001905 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169001906 active site 930169001907 metal binding site [ion binding]; metal-binding site 930169001908 hexamer interface [polypeptide binding]; other site 930169001909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 930169001910 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930169001911 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930169001912 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 930169001913 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 930169001914 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 930169001915 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 930169001916 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930169001917 NAD(P) binding site [chemical binding]; other site 930169001918 DctM-like transporters; Region: DctM; pfam06808 930169001919 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169001920 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169001921 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169001922 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169001923 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169001924 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169001925 acyl-activating enzyme (AAE) consensus motif; other site 930169001926 acyl-activating enzyme (AAE) consensus motif; other site 930169001927 putative AMP binding site [chemical binding]; other site 930169001928 putative active site [active] 930169001929 putative CoA binding site [chemical binding]; other site 930169001930 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 930169001931 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 930169001932 active site 930169001933 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 930169001934 PAS domain; Region: PAS_9; pfam13426 930169001935 putative active site [active] 930169001936 heme pocket [chemical binding]; other site 930169001937 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169001938 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 930169001939 DNA binding residues [nucleotide binding] 930169001940 dimerization interface [polypeptide binding]; other site 930169001941 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 930169001942 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 930169001943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169001944 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 930169001945 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 930169001946 anchoring element; other site 930169001947 dimer interface [polypeptide binding]; other site 930169001948 ATP binding site [chemical binding]; other site 930169001949 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 930169001950 active site 930169001951 putative metal-binding site [ion binding]; other site 930169001952 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 930169001953 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 930169001954 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 930169001955 CAP-like domain; other site 930169001956 active site 930169001957 primary dimer interface [polypeptide binding]; other site 930169001958 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 930169001959 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 930169001960 putative acyl-acceptor binding pocket; other site 930169001961 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 930169001962 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 930169001963 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169001964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169001965 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 930169001966 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 930169001967 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 930169001968 active site 930169001969 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 930169001970 MarR family; Region: MarR_2; cl17246 930169001971 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 930169001972 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169001973 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 930169001974 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 930169001975 motif 1; other site 930169001976 dimer interface [polypeptide binding]; other site 930169001977 active site 930169001978 motif 2; other site 930169001979 motif 3; other site 930169001980 elongation factor P; Validated; Region: PRK00529 930169001981 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 930169001982 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 930169001983 RNA binding site [nucleotide binding]; other site 930169001984 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 930169001985 RNA binding site [nucleotide binding]; other site 930169001986 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 930169001987 FeS/SAM binding site; other site 930169001988 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169001989 PAS fold; Region: PAS; pfam00989 930169001990 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 930169001991 putative active site [active] 930169001992 heme pocket [chemical binding]; other site 930169001993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169001994 metal binding site [ion binding]; metal-binding site 930169001995 active site 930169001996 I-site; other site 930169001997 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 930169001998 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 930169001999 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 930169002000 Walker A motif; other site 930169002001 ATP binding site [chemical binding]; other site 930169002002 Walker B motif; other site 930169002003 arginine finger; other site 930169002004 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169002005 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 930169002006 putative C-terminal domain interface [polypeptide binding]; other site 930169002007 putative GSH binding site (G-site) [chemical binding]; other site 930169002008 putative dimer interface [polypeptide binding]; other site 930169002009 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 930169002010 N-terminal domain interface [polypeptide binding]; other site 930169002011 dimer interface [polypeptide binding]; other site 930169002012 substrate binding pocket (H-site) [chemical binding]; other site 930169002013 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169002014 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169002015 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 930169002016 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 930169002017 active site 930169002018 PAS fold; Region: PAS_4; pfam08448 930169002019 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 930169002020 putative active site [active] 930169002021 heme pocket [chemical binding]; other site 930169002022 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 930169002023 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 930169002024 Walker A motif; other site 930169002025 ATP binding site [chemical binding]; other site 930169002026 Walker B motif; other site 930169002027 arginine finger; other site 930169002028 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169002029 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 930169002030 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169002031 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 930169002032 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 930169002033 DctM-like transporters; Region: DctM; pfam06808 930169002034 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 930169002035 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 930169002036 acyl-activating enzyme (AAE) consensus motif; other site 930169002037 putative AMP binding site [chemical binding]; other site 930169002038 putative active site [active] 930169002039 putative CoA binding site [chemical binding]; other site 930169002040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169002041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169002042 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 930169002043 putative effector binding pocket; other site 930169002044 putative dimerization interface [polypeptide binding]; other site 930169002045 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 930169002046 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169002047 active site 930169002048 catalytic tetrad [active] 930169002049 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169002050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169002051 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 930169002052 dimerization interface [polypeptide binding]; other site 930169002053 enoyl-CoA hydratase; Validated; Region: PRK08139 930169002054 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 930169002055 substrate binding site [chemical binding]; other site 930169002056 oxyanion hole (OAH) forming residues; other site 930169002057 trimer interface [polypeptide binding]; other site 930169002058 OsmC-like protein; Region: OsmC; pfam02566 930169002059 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 930169002060 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 930169002061 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 930169002062 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169002063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169002064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169002065 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169002066 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169002067 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169002068 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 930169002069 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 930169002070 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 930169002071 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 930169002072 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 930169002073 FAD binding pocket [chemical binding]; other site 930169002074 FAD binding motif [chemical binding]; other site 930169002075 phosphate binding motif [ion binding]; other site 930169002076 NAD binding pocket [chemical binding]; other site 930169002077 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169002078 MarR family; Region: MarR_2; pfam12802 930169002079 MarR family; Region: MarR_2; cl17246 930169002080 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 930169002081 Fatty acid desaturase; Region: FA_desaturase; pfam00487 930169002082 Di-iron ligands [ion binding]; other site 930169002083 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169002084 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169002085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169002086 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 930169002087 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 930169002088 putative active site pocket [active] 930169002089 dimerization interface [polypeptide binding]; other site 930169002090 putative catalytic residue [active] 930169002091 ferrochelatase; Reviewed; Region: hemH; PRK00035 930169002092 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 930169002093 C-terminal domain interface [polypeptide binding]; other site 930169002094 active site 930169002095 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 930169002096 active site 930169002097 N-terminal domain interface [polypeptide binding]; other site 930169002098 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 930169002099 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 930169002100 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 930169002101 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169002102 Uncharacterized conserved protein [Function unknown]; Region: COG3791 930169002103 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 930169002104 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169002105 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169002106 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169002107 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169002108 MarR family; Region: MarR_2; pfam12802 930169002109 NIPSNAP; Region: NIPSNAP; pfam07978 930169002110 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 930169002111 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169002112 Walker A/P-loop; other site 930169002113 ATP binding site [chemical binding]; other site 930169002114 Q-loop/lid; other site 930169002115 ABC transporter signature motif; other site 930169002116 Walker B; other site 930169002117 D-loop; other site 930169002118 H-loop/switch region; other site 930169002119 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 930169002120 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169002121 Walker A/P-loop; other site 930169002122 ATP binding site [chemical binding]; other site 930169002123 Q-loop/lid; other site 930169002124 ABC transporter signature motif; other site 930169002125 Walker B; other site 930169002126 D-loop; other site 930169002127 H-loop/switch region; other site 930169002128 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169002129 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 930169002130 TM-ABC transporter signature motif; other site 930169002131 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 930169002132 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169002133 TM-ABC transporter signature motif; other site 930169002134 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169002135 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 930169002136 putative ligand binding site [chemical binding]; other site 930169002137 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169002138 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169002139 DNA-binding site [nucleotide binding]; DNA binding site 930169002140 FCD domain; Region: FCD; pfam07729 930169002141 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169002142 urea carboxylase; Region: urea_carbox; TIGR02712 930169002143 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169002144 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930169002145 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 930169002146 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 930169002147 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 930169002148 carboxyltransferase (CT) interaction site; other site 930169002149 biotinylation site [posttranslational modification]; other site 930169002150 allophanate hydrolase; Provisional; Region: PRK08186 930169002151 Amidase; Region: Amidase; cl11426 930169002152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169002153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169002154 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 930169002155 dimerization interface [polypeptide binding]; other site 930169002156 Amidohydrolase ring-opening protein (Amido_AtzD_TrzD); Region: Amido_AtzD_TrzD; pfam09663 930169002157 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 930169002158 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 930169002159 putative ligand binding site [chemical binding]; other site 930169002160 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 930169002161 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169002162 TM-ABC transporter signature motif; other site 930169002163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169002164 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; cl00454 930169002165 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 930169002166 TM-ABC transporter signature motif; other site 930169002167 formamidase; Provisional; Region: amiF; PRK13287 930169002168 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 930169002169 multimer interface [polypeptide binding]; other site 930169002170 active site 930169002171 catalytic triad [active] 930169002172 dimer interface [polypeptide binding]; other site 930169002173 Isochorismatase family; Region: Isochorismatase; pfam00857 930169002174 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930169002175 catalytic triad [active] 930169002176 conserved cis-peptide bond; other site 930169002177 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 930169002178 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 930169002179 Walker A/P-loop; other site 930169002180 ATP binding site [chemical binding]; other site 930169002181 Q-loop/lid; other site 930169002182 ABC transporter signature motif; other site 930169002183 Walker B; other site 930169002184 D-loop; other site 930169002185 H-loop/switch region; other site 930169002186 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 930169002187 Isochorismatase family; Region: Isochorismatase; pfam00857 930169002188 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930169002189 catalytic triad [active] 930169002190 conserved cis-peptide bond; other site 930169002191 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 930169002192 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 930169002193 active site 930169002194 homopentamer interface [polypeptide binding]; other site 930169002195 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 930169002196 putative peptidase; Provisional; Region: PRK11649 930169002197 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169002198 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 930169002199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169002200 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 930169002201 DNA binding residues [nucleotide binding] 930169002202 fec operon regulator FecR; Reviewed; Region: PRK09774 930169002203 FecR protein; Region: FecR; pfam04773 930169002204 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169002205 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169002206 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 930169002207 N-terminal plug; other site 930169002208 ligand-binding site [chemical binding]; other site 930169002209 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169002210 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 930169002211 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169002212 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 930169002213 putative substrate translocation pore; other site 930169002214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169002215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169002216 oxidative damage protection protein; Provisional; Region: PRK05408 930169002217 adenine DNA glycosylase; Provisional; Region: PRK10880 930169002218 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930169002219 minor groove reading motif; other site 930169002220 helix-hairpin-helix signature motif; other site 930169002221 substrate binding pocket [chemical binding]; other site 930169002222 active site 930169002223 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 930169002224 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 930169002225 DNA binding and oxoG recognition site [nucleotide binding] 930169002226 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 930169002227 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930169002228 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 930169002229 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 930169002230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169002231 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 930169002232 ATP binding site [chemical binding]; other site 930169002233 Mg2+ binding site [ion binding]; other site 930169002234 G-X-G motif; other site 930169002235 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 930169002236 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 930169002237 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 930169002238 active site residue [active] 930169002239 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 930169002240 active site residue [active] 930169002241 GTPase RsgA; Reviewed; Region: PRK12288 930169002242 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 930169002243 RNA binding site [nucleotide binding]; other site 930169002244 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 930169002245 GTPase/Zn-binding domain interface [polypeptide binding]; other site 930169002246 GTP/Mg2+ binding site [chemical binding]; other site 930169002247 G4 box; other site 930169002248 G5 box; other site 930169002249 G1 box; other site 930169002250 Switch I region; other site 930169002251 G2 box; other site 930169002252 G3 box; other site 930169002253 Switch II region; other site 930169002254 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 930169002255 catalytic site [active] 930169002256 putative active site [active] 930169002257 putative substrate binding site [chemical binding]; other site 930169002258 dimer interface [polypeptide binding]; other site 930169002259 epoxyqueuosine reductase; Region: TIGR00276 930169002260 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 930169002261 4Fe-4S binding domain; Region: Fer4; pfam00037 930169002262 putative carbohydrate kinase; Provisional; Region: PRK10565 930169002263 Uncharacterized conserved protein [Function unknown]; Region: COG0062 930169002264 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 930169002265 putative substrate binding site [chemical binding]; other site 930169002266 putative ATP binding site [chemical binding]; other site 930169002267 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 930169002268 AMIN domain; Region: AMIN; pfam11741 930169002269 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 930169002270 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 930169002271 active site 930169002272 metal binding site [ion binding]; metal-binding site 930169002273 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169002274 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 930169002275 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 930169002276 ATP binding site [chemical binding]; other site 930169002277 Mg2+ binding site [ion binding]; other site 930169002278 G-X-G motif; other site 930169002279 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 930169002280 ATP binding site [chemical binding]; other site 930169002281 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 930169002282 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 930169002283 IPP transferase; Region: IPPT; pfam01715 930169002284 bacterial Hfq-like; Region: Hfq; cd01716 930169002285 hexamer interface [polypeptide binding]; other site 930169002286 Sm1 motif; other site 930169002287 RNA binding site [nucleotide binding]; other site 930169002288 Sm2 motif; other site 930169002289 GTPase HflX; Provisional; Region: PRK11058 930169002290 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 930169002291 HflX GTPase family; Region: HflX; cd01878 930169002292 G1 box; other site 930169002293 GTP/Mg2+ binding site [chemical binding]; other site 930169002294 Switch I region; other site 930169002295 G2 box; other site 930169002296 G3 box; other site 930169002297 Switch II region; other site 930169002298 G4 box; other site 930169002299 G5 box; other site 930169002300 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 930169002301 HflK protein; Region: hflK; TIGR01933 930169002302 HflC protein; Region: hflC; TIGR01932 930169002303 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 930169002304 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 930169002305 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 930169002306 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 930169002307 dimer interface [polypeptide binding]; other site 930169002308 motif 1; other site 930169002309 active site 930169002310 motif 2; other site 930169002311 motif 3; other site 930169002312 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 930169002313 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 930169002314 GDP-binding site [chemical binding]; other site 930169002315 ACT binding site; other site 930169002316 IMP binding site; other site 930169002317 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 930169002318 Alkaline phosphatase homologues; Region: alkPPc; smart00098 930169002319 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 930169002320 active site 930169002321 dimer interface [polypeptide binding]; other site 930169002322 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 930169002323 dimer interface [polypeptide binding]; other site 930169002324 Alkaline phosphatase homologues; Region: alkPPc; smart00098 930169002325 active site 930169002326 PhoD-like phosphatase; Region: PhoD; pfam09423 930169002327 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 930169002328 putative active site [active] 930169002329 putative metal binding site [ion binding]; other site 930169002330 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 930169002331 ribonuclease R; Region: RNase_R; TIGR02063 930169002332 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 930169002333 RNB domain; Region: RNB; pfam00773 930169002334 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 930169002335 RNA binding site [nucleotide binding]; other site 930169002336 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 930169002337 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 930169002338 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 930169002339 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 930169002340 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 930169002341 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 930169002342 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 930169002343 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 930169002344 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 930169002345 replicative DNA helicase; Region: DnaB; TIGR00665 930169002346 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 930169002347 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 930169002348 Walker A motif; other site 930169002349 ATP binding site [chemical binding]; other site 930169002350 Walker B motif; other site 930169002351 DNA binding loops [nucleotide binding] 930169002352 alanine racemase; Reviewed; Region: alr; PRK00053 930169002353 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 930169002354 active site 930169002355 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169002356 substrate binding site [chemical binding]; other site 930169002357 catalytic residues [active] 930169002358 dimer interface [polypeptide binding]; other site 930169002359 DNA repair protein RadA; Provisional; Region: PRK11823 930169002360 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 930169002361 Walker A motif/ATP binding site; other site 930169002362 ATP binding site [chemical binding]; other site 930169002363 Walker B motif; other site 930169002364 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 930169002365 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 930169002366 TrkA-N domain; Region: TrkA_N; pfam02254 930169002367 TrkA-C domain; Region: TrkA_C; pfam02080 930169002368 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 930169002369 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 930169002370 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169002371 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169002372 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 930169002373 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169002374 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 930169002375 N-terminal plug; other site 930169002376 ligand-binding site [chemical binding]; other site 930169002377 Protein of unknown function, DUF547; Region: DUF547; pfam04784 930169002378 Uncharacterized conserved protein [Function unknown]; Region: COG0398 930169002379 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 930169002380 mercuric reductase; Validated; Region: PRK06370 930169002381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169002382 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930169002383 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930169002384 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 930169002385 S-adenosylmethionine binding site [chemical binding]; other site 930169002386 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169002387 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169002388 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169002389 DNA binding residues [nucleotide binding] 930169002390 fec operon regulator FecR; Reviewed; Region: PRK09774 930169002391 FecR protein; Region: FecR; pfam04773 930169002392 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169002393 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 930169002394 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 930169002395 N-terminal plug; other site 930169002396 ligand-binding site [chemical binding]; other site 930169002397 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 930169002398 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 930169002399 DNA binding residues [nucleotide binding] 930169002400 dimerization interface [polypeptide binding]; other site 930169002401 Predicted membrane protein [Function unknown]; Region: COG2259 930169002402 Putative zinc-finger; Region: zf-HC2; pfam13490 930169002403 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 930169002404 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169002405 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 930169002406 DNA binding residues [nucleotide binding] 930169002407 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 930169002408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169002409 Walker A/P-loop; other site 930169002410 ATP binding site [chemical binding]; other site 930169002411 Q-loop/lid; other site 930169002412 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169002413 ABC transporter signature motif; other site 930169002414 Walker B; other site 930169002415 D-loop; other site 930169002416 ABC transporter; Region: ABC_tran_2; pfam12848 930169002417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169002418 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 930169002419 dimerization interface [polypeptide binding]; other site 930169002420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169002421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169002422 dimer interface [polypeptide binding]; other site 930169002423 putative CheW interface [polypeptide binding]; other site 930169002424 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 930169002425 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 930169002426 dimer interface [polypeptide binding]; other site 930169002427 active site 930169002428 glycine-pyridoxal phosphate binding site [chemical binding]; other site 930169002429 folate binding site [chemical binding]; other site 930169002430 hypothetical protein; Reviewed; Region: PRK12275 930169002431 four helix bundle protein; Region: TIGR02436 930169002432 transcriptional regulator NrdR; Region: TIGR00244 930169002433 ATP cone domain; Region: ATP-cone; pfam03477 930169002434 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 930169002435 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 930169002436 catalytic motif [active] 930169002437 Zn binding site [ion binding]; other site 930169002438 RibD C-terminal domain; Region: RibD_C; cl17279 930169002439 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 930169002440 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169002441 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 930169002442 C-terminal domain interface [polypeptide binding]; other site 930169002443 GSH binding site (G-site) [chemical binding]; other site 930169002444 dimer interface [polypeptide binding]; other site 930169002445 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 930169002446 N-terminal domain interface [polypeptide binding]; other site 930169002447 dimer interface [polypeptide binding]; other site 930169002448 substrate binding pocket (H-site) [chemical binding]; other site 930169002449 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 930169002450 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 930169002451 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 930169002452 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 930169002453 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 930169002454 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 930169002455 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 930169002456 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 930169002457 FAD binding pocket [chemical binding]; other site 930169002458 FAD binding motif [chemical binding]; other site 930169002459 phosphate binding motif [ion binding]; other site 930169002460 beta-alpha-beta structure motif; other site 930169002461 NAD(p) ribose binding residues [chemical binding]; other site 930169002462 NAD binding pocket [chemical binding]; other site 930169002463 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 930169002464 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 930169002465 catalytic loop [active] 930169002466 iron binding site [ion binding]; other site 930169002467 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 930169002468 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 930169002469 substrate binding site [chemical binding]; other site 930169002470 dimer interface [polypeptide binding]; other site 930169002471 NADP binding site [chemical binding]; other site 930169002472 catalytic residues [active] 930169002473 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 930169002474 substrate binding site [chemical binding]; other site 930169002475 Fic/DOC family; Region: Fic; pfam02661 930169002476 Tannase and feruloyl esterase; Region: Tannase; pfam07519 930169002477 OsmC-like protein; Region: OsmC; cl00767 930169002478 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 930169002479 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 930169002480 active site 930169002481 metal binding site [ion binding]; metal-binding site 930169002482 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930169002483 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 930169002484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169002485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169002486 Coenzyme A binding pocket [chemical binding]; other site 930169002487 FOG: WD40 repeat [General function prediction only]; Region: COG2319 930169002488 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 930169002489 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 930169002490 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 930169002491 Catalytic site [active] 930169002492 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 930169002493 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169002494 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169002495 Walker A/P-loop; other site 930169002496 ATP binding site [chemical binding]; other site 930169002497 Q-loop/lid; other site 930169002498 ABC transporter signature motif; other site 930169002499 Walker B; other site 930169002500 D-loop; other site 930169002501 H-loop/switch region; other site 930169002502 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169002503 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169002504 Walker A/P-loop; other site 930169002505 ATP binding site [chemical binding]; other site 930169002506 Q-loop/lid; other site 930169002507 ABC transporter signature motif; other site 930169002508 Walker B; other site 930169002509 D-loop; other site 930169002510 H-loop/switch region; other site 930169002511 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169002512 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 930169002513 TM-ABC transporter signature motif; other site 930169002514 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169002515 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 930169002516 TM-ABC transporter signature motif; other site 930169002517 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 930169002518 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 930169002519 putative ligand binding site [chemical binding]; other site 930169002520 PaaX-like protein; Region: PaaX; pfam07848 930169002521 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 930169002522 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 930169002523 enoyl-CoA hydratase; Provisional; Region: PRK08140 930169002524 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 930169002525 substrate binding site [chemical binding]; other site 930169002526 oxyanion hole (OAH) forming residues; other site 930169002527 trimer interface [polypeptide binding]; other site 930169002528 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 930169002529 CoenzymeA binding site [chemical binding]; other site 930169002530 subunit interaction site [polypeptide binding]; other site 930169002531 PHB binding site; other site 930169002532 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 930169002533 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 930169002534 active site 930169002535 AMP binding site [chemical binding]; other site 930169002536 homodimer interface [polypeptide binding]; other site 930169002537 acyl-activating enzyme (AAE) consensus motif; other site 930169002538 CoA binding site [chemical binding]; other site 930169002539 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 930169002540 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 930169002541 Mg2+ binding site [ion binding]; other site 930169002542 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 930169002543 ATP binding site [chemical binding]; other site 930169002544 Mg2+ binding site [ion binding]; other site 930169002545 G-X-G motif; other site 930169002546 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169002547 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 930169002548 active site 930169002549 phosphorylation site [posttranslational modification] 930169002550 intermolecular recognition site; other site 930169002551 dimerization interface [polypeptide binding]; other site 930169002552 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 930169002553 DNA binding residues [nucleotide binding] 930169002554 dimerization interface [polypeptide binding]; other site 930169002555 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 930169002556 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169002557 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 930169002558 DNA binding residues [nucleotide binding] 930169002559 dimerization interface [polypeptide binding]; other site 930169002560 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169002561 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 930169002562 active site 930169002563 phosphorylation site [posttranslational modification] 930169002564 intermolecular recognition site; other site 930169002565 dimerization interface [polypeptide binding]; other site 930169002566 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 930169002567 DNA binding residues [nucleotide binding] 930169002568 dimerization interface [polypeptide binding]; other site 930169002569 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169002570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169002571 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 930169002572 dimerization interface [polypeptide binding]; other site 930169002573 substrate binding pocket [chemical binding]; other site 930169002574 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169002575 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169002576 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 930169002577 Uncharacterized conserved protein [Function unknown]; Region: COG3791 930169002578 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 930169002579 Lumazine binding domain; Region: Lum_binding; pfam00677 930169002580 Lumazine binding domain; Region: Lum_binding; pfam00677 930169002581 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 930169002582 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 930169002583 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 930169002584 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 930169002585 homopentamer interface [polypeptide binding]; other site 930169002586 active site 930169002587 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 930169002588 putative RNA binding site [nucleotide binding]; other site 930169002589 thiamine monophosphate kinase; Provisional; Region: PRK05731 930169002590 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 930169002591 ATP binding site [chemical binding]; other site 930169002592 dimerization interface [polypeptide binding]; other site 930169002593 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 930169002594 tetramer interfaces [polypeptide binding]; other site 930169002595 binuclear metal-binding site [ion binding]; other site 930169002596 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 930169002597 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 930169002598 TPP-binding site; other site 930169002599 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 930169002600 PYR/PP interface [polypeptide binding]; other site 930169002601 dimer interface [polypeptide binding]; other site 930169002602 TPP binding site [chemical binding]; other site 930169002603 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 930169002604 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 930169002605 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 930169002606 substrate binding pocket [chemical binding]; other site 930169002607 chain length determination region; other site 930169002608 substrate-Mg2+ binding site; other site 930169002609 catalytic residues [active] 930169002610 aspartate-rich region 1; other site 930169002611 active site lid residues [active] 930169002612 aspartate-rich region 2; other site 930169002613 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 930169002614 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169002615 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 930169002616 active site 930169002617 phosphorylation site [posttranslational modification] 930169002618 intermolecular recognition site; other site 930169002619 dimerization interface [polypeptide binding]; other site 930169002620 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 930169002621 DNA binding site [nucleotide binding] 930169002622 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930169002623 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 930169002624 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 930169002625 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 930169002626 PapC N-terminal domain; Region: PapC_N; pfam13954 930169002627 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 930169002628 PapC C-terminal domain; Region: PapC_C; pfam13953 930169002629 putative major fimbrial protein SthE; Provisional; Region: PRK15292 930169002630 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 930169002631 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169002632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 930169002633 FecR protein; Region: FecR; pfam04773 930169002634 CHASE2 domain; Region: CHASE2; pfam05226 930169002635 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 930169002636 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 930169002637 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 930169002638 dimer interface [polypeptide binding]; other site 930169002639 phosphorylation site [posttranslational modification] 930169002640 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 930169002641 ATP binding site [chemical binding]; other site 930169002642 Mg2+ binding site [ion binding]; other site 930169002643 G-X-G motif; other site 930169002644 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 930169002645 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 930169002646 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 930169002647 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 930169002648 Na binding site [ion binding]; other site 930169002649 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 930169002650 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 930169002651 ligand binding site [chemical binding]; other site 930169002652 flexible hinge region; other site 930169002653 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 930169002654 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930169002655 metal binding triad; other site 930169002656 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 930169002657 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 930169002658 active site 930169002659 catalytic site [active] 930169002660 substrate binding site [chemical binding]; other site 930169002661 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 930169002662 Na binding site [ion binding]; other site 930169002663 PAS fold; Region: PAS_7; pfam12860 930169002664 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 930169002665 putative active site [active] 930169002666 heme pocket [chemical binding]; other site 930169002667 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169002668 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 930169002669 dimer interface [polypeptide binding]; other site 930169002670 phosphorylation site [posttranslational modification] 930169002671 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 930169002672 ATP binding site [chemical binding]; other site 930169002673 Mg2+ binding site [ion binding]; other site 930169002674 G-X-G motif; other site 930169002675 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169002676 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 930169002677 active site 930169002678 phosphorylation site [posttranslational modification] 930169002679 intermolecular recognition site; other site 930169002680 dimerization interface [polypeptide binding]; other site 930169002681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169002682 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 930169002683 active site 930169002684 phosphorylation site [posttranslational modification] 930169002685 intermolecular recognition site; other site 930169002686 dimerization interface [polypeptide binding]; other site 930169002687 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 930169002688 DNA binding residues [nucleotide binding] 930169002689 dimerization interface [polypeptide binding]; other site 930169002690 Ectoine synthase; Region: Ectoine_synth; pfam06339 930169002691 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 930169002692 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 930169002693 inhibitor-cofactor binding pocket; inhibition site 930169002694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169002695 catalytic residue [active] 930169002696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169002697 Coenzyme A binding pocket [chemical binding]; other site 930169002698 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169002699 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 930169002700 putative DNA binding site [nucleotide binding]; other site 930169002701 putative Zn2+ binding site [ion binding]; other site 930169002702 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 930169002703 Na binding site [ion binding]; other site 930169002704 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 930169002705 binding surface 930169002706 TPR motif; other site 930169002707 TPR repeat; Region: TPR_11; pfam13414 930169002708 putative GTP cyclohydrolase; Provisional; Region: PRK13674 930169002709 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169002710 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169002711 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 930169002712 N-terminal plug; other site 930169002713 ligand-binding site [chemical binding]; other site 930169002714 Haemolytic domain; Region: Haemolytic; pfam01809 930169002715 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 930169002716 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930169002717 active site 930169002718 HIGH motif; other site 930169002719 nucleotide binding site [chemical binding]; other site 930169002720 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 930169002721 KMSKS motif; other site 930169002722 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 930169002723 tRNA binding surface [nucleotide binding]; other site 930169002724 anticodon binding site; other site 930169002725 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 930169002726 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 930169002727 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 930169002728 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 930169002729 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 930169002730 active site 930169002731 dimer interface [polypeptide binding]; other site 930169002732 motif 1; other site 930169002733 motif 2; other site 930169002734 motif 3; other site 930169002735 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 930169002736 anticodon binding site; other site 930169002737 GAF domain; Region: GAF; pfam01590 930169002738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930169002739 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169002740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169002741 metal binding site [ion binding]; metal-binding site 930169002742 active site 930169002743 I-site; other site 930169002744 Arc-like DNA binding domain; Region: Arc; pfam03869 930169002745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169002746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169002747 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 930169002748 substrate binding pocket [chemical binding]; other site 930169002749 dimerization interface [polypeptide binding]; other site 930169002750 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 930169002751 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 930169002752 nucleotide binding site/active site [active] 930169002753 HIT family signature motif; other site 930169002754 catalytic residue [active] 930169002755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169002756 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169002757 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 930169002758 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 930169002759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 930169002760 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 930169002761 Protein of unknown function, DUF479; Region: DUF479; cl01203 930169002762 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 930169002763 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 930169002764 putative NAD(P) binding site [chemical binding]; other site 930169002765 active site 930169002766 3D domain; Region: 3D; cl01439 930169002767 short chain dehydrogenase; Provisional; Region: PRK08267 930169002768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169002769 NAD(P) binding site [chemical binding]; other site 930169002770 active site 930169002771 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 930169002772 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169002773 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169002774 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169002775 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169002776 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169002777 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 930169002778 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 930169002779 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 930169002780 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 930169002781 putative ADP-ribose binding site [chemical binding]; other site 930169002782 putative active site [active] 930169002783 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 930169002784 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 930169002785 active site 930169002786 Phospholipase A1; Region: PLA1; pfam02253 930169002787 dimerization interface [polypeptide binding]; other site 930169002788 substrate binding site [chemical binding]; other site 930169002789 active site 930169002790 calcium binding site [ion binding]; other site 930169002791 Uncharacterized conserved protein [Function unknown]; Region: COG2835 930169002792 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 930169002793 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 930169002794 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169002795 active site 930169002796 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 930169002797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 930169002798 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 930169002799 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 930169002800 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169002801 active site 930169002802 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 930169002803 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 930169002804 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 930169002805 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 930169002806 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 930169002807 Surface antigen; Region: Bac_surface_Ag; pfam01103 930169002808 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 930169002809 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 930169002810 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 930169002811 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930169002812 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 930169002813 Gram-negative bacterial tonB protein; Region: TonB; cl10048 930169002814 TIGR02680 family protein; Region: TIGR02680 930169002815 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 930169002816 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 930169002817 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930169002818 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169002819 FecR protein; Region: FecR; pfam04773 930169002820 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 930169002821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169002822 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 930169002823 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169002824 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 930169002825 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 930169002826 Autoinducer binding domain; Region: Autoind_bind; pfam03472 930169002827 transcriptional regulator TraR; Provisional; Region: PRK13870 930169002828 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 930169002829 DNA binding residues [nucleotide binding] 930169002830 dimerization interface [polypeptide binding]; other site 930169002831 PBP superfamily domain; Region: PBP_like_2; cl17296 930169002832 PBP superfamily domain; Region: PBP_like_2; cl17296 930169002833 Autoinducer binding domain; Region: Autoind_bind; pfam03472 930169002834 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169002835 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 930169002836 DNA binding residues [nucleotide binding] 930169002837 dimerization interface [polypeptide binding]; other site 930169002838 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 930169002839 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 930169002840 Interdomain contacts; other site 930169002841 Cytokine receptor motif; other site 930169002842 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 930169002843 active site 930169002844 metal binding site [ion binding]; metal-binding site 930169002845 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169002846 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 930169002847 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 930169002848 Predicted flavoprotein [General function prediction only]; Region: COG0431 930169002849 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169002850 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169002851 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169002852 active site 930169002853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169002854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169002855 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 930169002856 short chain dehydrogenase; Provisional; Region: PRK07577 930169002857 classical (c) SDRs; Region: SDR_c; cd05233 930169002858 NAD(P) binding site [chemical binding]; other site 930169002859 active site 930169002860 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169002861 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 930169002862 ligand binding site [chemical binding]; other site 930169002863 flexible hinge region; other site 930169002864 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 930169002865 putative switch regulator; other site 930169002866 non-specific DNA interactions [nucleotide binding]; other site 930169002867 DNA binding site [nucleotide binding] 930169002868 sequence specific DNA binding site [nucleotide binding]; other site 930169002869 putative cAMP binding site [chemical binding]; other site 930169002870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 930169002871 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169002872 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 930169002873 N-terminal plug; other site 930169002874 ligand-binding site [chemical binding]; other site 930169002875 Secretory lipase; Region: LIP; pfam03583 930169002876 Protein of unknown function (DUF808); Region: DUF808; pfam05661 930169002877 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 930169002878 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 930169002879 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 930169002880 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 930169002881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169002882 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930169002883 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 930169002884 DNA binding residues [nucleotide binding] 930169002885 DNA primase, catalytic core; Region: dnaG; TIGR01391 930169002886 CHC2 zinc finger; Region: zf-CHC2; pfam01807 930169002887 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 930169002888 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 930169002889 active site 930169002890 metal binding site [ion binding]; metal-binding site 930169002891 interdomain interaction site; other site 930169002892 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 930169002893 Yqey-like protein; Region: YqeY; pfam09424 930169002894 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 930169002895 UGMP family protein; Validated; Region: PRK09604 930169002896 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 930169002897 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 930169002898 homooctamer interface [polypeptide binding]; other site 930169002899 active site 930169002900 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 930169002901 catalytic center binding site [active] 930169002902 ATP binding site [chemical binding]; other site 930169002903 pteridine reductase; Provisional; Region: PRK09135 930169002904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169002905 NAD(P) binding site [chemical binding]; other site 930169002906 active site 930169002907 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 930169002908 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 930169002909 active site 930169002910 NTP binding site [chemical binding]; other site 930169002911 metal binding triad [ion binding]; metal-binding site 930169002912 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 930169002913 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 930169002914 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 930169002915 FMN binding site [chemical binding]; other site 930169002916 substrate binding site [chemical binding]; other site 930169002917 putative catalytic residue [active] 930169002918 SpoVR family protein; Provisional; Region: PRK11767 930169002919 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 930169002920 hypothetical protein; Provisional; Region: PRK05325 930169002921 PrkA family serine protein kinase; Provisional; Region: PRK15455 930169002922 AAA ATPase domain; Region: AAA_16; pfam13191 930169002923 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 930169002924 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 930169002925 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 930169002926 active site 930169002927 metal binding site [ion binding]; metal-binding site 930169002928 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 930169002929 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 930169002930 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 930169002931 S-adenosylmethionine binding site [chemical binding]; other site 930169002932 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 930169002933 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 930169002934 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 930169002935 SurA N-terminal domain; Region: SurA_N; pfam09312 930169002936 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930169002937 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930169002938 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 930169002939 Organic solvent tolerance protein; Region: OstA_C; pfam04453 930169002940 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 930169002941 Phosphotransferase enzyme family; Region: APH; pfam01636 930169002942 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 930169002943 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 930169002944 Substrate binding site; other site 930169002945 metal-binding site 930169002946 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 930169002947 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 930169002948 substrate binding site [chemical binding]; other site 930169002949 hexamer interface [polypeptide binding]; other site 930169002950 metal binding site [ion binding]; metal-binding site 930169002951 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930169002952 EamA-like transporter family; Region: EamA; pfam00892 930169002953 NlpC/P60 family; Region: NLPC_P60; pfam00877 930169002954 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169002955 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930169002956 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 930169002957 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 930169002958 putative active site [active] 930169002959 putative FMN binding site [chemical binding]; other site 930169002960 putative substrate binding site [chemical binding]; other site 930169002961 putative catalytic residue [active] 930169002962 metabolite-proton symporter; Region: 2A0106; TIGR00883 930169002963 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 930169002964 putative substrate translocation pore; other site 930169002965 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 930169002966 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 930169002967 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 930169002968 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 930169002969 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 930169002970 D-pathway; other site 930169002971 Putative ubiquinol binding site [chemical binding]; other site 930169002972 Low-spin heme (heme b) binding site [chemical binding]; other site 930169002973 Putative water exit pathway; other site 930169002974 Binuclear center (heme o3/CuB) [ion binding]; other site 930169002975 K-pathway; other site 930169002976 Putative proton exit pathway; other site 930169002977 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 930169002978 Subunit I/III interface [polypeptide binding]; other site 930169002979 Subunit III/IV interface [polypeptide binding]; other site 930169002980 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 930169002981 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 930169002982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169002983 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 930169002984 ATP binding site [chemical binding]; other site 930169002985 Mg2+ binding site [ion binding]; other site 930169002986 G-X-G motif; other site 930169002987 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 930169002988 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 930169002989 active site 930169002990 phosphorylation site [posttranslational modification] 930169002991 intermolecular recognition site; other site 930169002992 dimerization interface [polypeptide binding]; other site 930169002993 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169002994 anthranilate synthase component I; Provisional; Region: PRK13565 930169002995 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 930169002996 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 930169002997 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 930169002998 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 930169002999 glutamine binding [chemical binding]; other site 930169003000 catalytic triad [active] 930169003001 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 930169003002 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 930169003003 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 930169003004 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 930169003005 active site 930169003006 ribulose/triose binding site [chemical binding]; other site 930169003007 phosphate binding site [ion binding]; other site 930169003008 substrate (anthranilate) binding pocket [chemical binding]; other site 930169003009 product (indole) binding pocket [chemical binding]; other site 930169003010 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 930169003011 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 930169003012 ligand binding site [chemical binding]; other site 930169003013 flexible hinge region; other site 930169003014 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 930169003015 putative switch regulator; other site 930169003016 non-specific DNA interactions [nucleotide binding]; other site 930169003017 DNA binding site [nucleotide binding] 930169003018 sequence specific DNA binding site [nucleotide binding]; other site 930169003019 putative cAMP binding site [chemical binding]; other site 930169003020 OsmC-like protein; Region: OsmC; cl00767 930169003021 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 930169003022 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 930169003023 diiron binding motif [ion binding]; other site 930169003024 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 930169003025 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 930169003026 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 930169003027 dimer interface [polypeptide binding]; other site 930169003028 phosphorylation site [posttranslational modification] 930169003029 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 930169003030 ATP binding site [chemical binding]; other site 930169003031 Mg2+ binding site [ion binding]; other site 930169003032 G-X-G motif; other site 930169003033 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 930169003034 Response regulator receiver domain; Region: Response_reg; pfam00072 930169003035 active site 930169003036 phosphorylation site [posttranslational modification] 930169003037 intermolecular recognition site; other site 930169003038 dimerization interface [polypeptide binding]; other site 930169003039 Response regulator receiver domain; Region: Response_reg; pfam00072 930169003040 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 930169003041 active site 930169003042 phosphorylation site [posttranslational modification] 930169003043 intermolecular recognition site; other site 930169003044 dimerization interface [polypeptide binding]; other site 930169003045 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169003046 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 930169003047 ligand binding site [chemical binding]; other site 930169003048 flexible hinge region; other site 930169003049 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169003050 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 930169003051 ligand binding site [chemical binding]; other site 930169003052 flexible hinge region; other site 930169003053 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 930169003054 active site residue [active] 930169003055 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 930169003056 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 930169003057 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 930169003058 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 930169003059 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 930169003060 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 930169003061 purine monophosphate binding site [chemical binding]; other site 930169003062 dimer interface [polypeptide binding]; other site 930169003063 putative catalytic residues [active] 930169003064 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 930169003065 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 930169003066 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 930169003067 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 930169003068 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 930169003069 FMN binding site [chemical binding]; other site 930169003070 active site 930169003071 catalytic residues [active] 930169003072 substrate binding site [chemical binding]; other site 930169003073 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 930169003074 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 930169003075 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 930169003076 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 930169003077 Phospholipid methyltransferase; Region: PEMT; cl17370 930169003078 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 930169003079 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 930169003080 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169003081 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930169003082 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930169003083 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 930169003084 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 930169003085 carboxyltransferase (CT) interaction site; other site 930169003086 biotinylation site [posttranslational modification]; other site 930169003087 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 930169003088 Dehydroquinase class II; Region: DHquinase_II; pfam01220 930169003089 trimer interface [polypeptide binding]; other site 930169003090 active site 930169003091 dimer interface [polypeptide binding]; other site 930169003092 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 930169003093 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 930169003094 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 930169003095 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 930169003096 DsbD alpha interface [polypeptide binding]; other site 930169003097 catalytic residues [active] 930169003098 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 930169003099 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169003100 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169003101 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169003102 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169003103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003104 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 930169003105 dimer interface [polypeptide binding]; other site 930169003106 substrate binding site [chemical binding]; other site 930169003107 metal binding sites [ion binding]; metal-binding site 930169003108 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169003109 active site 930169003110 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 930169003111 Predicted transcriptional regulator [Transcription]; Region: COG2378 930169003112 HTH domain; Region: HTH_11; pfam08279 930169003113 WYL domain; Region: WYL; pfam13280 930169003114 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 930169003115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169003116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169003117 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 930169003118 dimerization interface [polypeptide binding]; other site 930169003119 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_10; cd08515 930169003120 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 930169003121 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930169003122 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 930169003123 dimer interface [polypeptide binding]; other site 930169003124 conserved gate region; other site 930169003125 putative PBP binding loops; other site 930169003126 ABC-ATPase subunit interface; other site 930169003127 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 930169003128 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 930169003129 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 930169003130 dimer interface [polypeptide binding]; other site 930169003131 conserved gate region; other site 930169003132 putative PBP binding loops; other site 930169003133 ABC-ATPase subunit interface; other site 930169003134 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 930169003135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169003136 Walker A/P-loop; other site 930169003137 ATP binding site [chemical binding]; other site 930169003138 Q-loop/lid; other site 930169003139 ABC transporter signature motif; other site 930169003140 Walker B; other site 930169003141 D-loop; other site 930169003142 H-loop/switch region; other site 930169003143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 930169003144 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169003145 Walker A/P-loop; other site 930169003146 ATP binding site [chemical binding]; other site 930169003147 Q-loop/lid; other site 930169003148 ABC transporter signature motif; other site 930169003149 Walker B; other site 930169003150 D-loop; other site 930169003151 H-loop/switch region; other site 930169003152 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169003153 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169003154 PGAP1-like protein; Region: PGAP1; pfam07819 930169003155 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169003156 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 930169003157 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 930169003158 tetramer interface [polypeptide binding]; other site 930169003159 active site 930169003160 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 930169003161 putative hydrophobic ligand binding site [chemical binding]; other site 930169003162 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 930169003163 dimerization interface [polypeptide binding]; other site 930169003164 putative DNA binding site [nucleotide binding]; other site 930169003165 putative Zn2+ binding site [ion binding]; other site 930169003166 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 930169003167 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 930169003168 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 930169003169 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169003170 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 930169003171 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169003172 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169003173 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 930169003174 N-terminal plug; other site 930169003175 ligand-binding site [chemical binding]; other site 930169003176 6-phosphofructokinase; Provisional; Region: PRK14072 930169003177 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 930169003178 active site 930169003179 ADP/pyrophosphate binding site [chemical binding]; other site 930169003180 dimerization interface [polypeptide binding]; other site 930169003181 allosteric effector site; other site 930169003182 fructose-1,6-bisphosphate binding site; other site 930169003183 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 930169003184 active site 930169003185 phosphorylation site [posttranslational modification] 930169003186 intermolecular recognition site; other site 930169003187 dimerization interface [polypeptide binding]; other site 930169003188 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 930169003189 DNA binding residues [nucleotide binding] 930169003190 dimerization interface [polypeptide binding]; other site 930169003191 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 930169003192 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 930169003193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169003194 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 930169003195 dimer interface [polypeptide binding]; other site 930169003196 phosphorylation site [posttranslational modification] 930169003197 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 930169003198 ATP binding site [chemical binding]; other site 930169003199 Mg2+ binding site [ion binding]; other site 930169003200 G-X-G motif; other site 930169003201 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169003202 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 930169003203 active site 930169003204 phosphorylation site [posttranslational modification] 930169003205 intermolecular recognition site; other site 930169003206 dimerization interface [polypeptide binding]; other site 930169003207 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 930169003208 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169003209 putative ligand binding site [chemical binding]; other site 930169003210 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169003211 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 930169003212 TM-ABC transporter signature motif; other site 930169003213 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169003214 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 930169003215 TM-ABC transporter signature motif; other site 930169003216 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 930169003217 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169003218 Walker A/P-loop; other site 930169003219 ATP binding site [chemical binding]; other site 930169003220 Q-loop/lid; other site 930169003221 ABC transporter signature motif; other site 930169003222 Walker B; other site 930169003223 D-loop; other site 930169003224 H-loop/switch region; other site 930169003225 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 930169003226 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169003227 Walker A/P-loop; other site 930169003228 ATP binding site [chemical binding]; other site 930169003229 Q-loop/lid; other site 930169003230 ABC transporter signature motif; other site 930169003231 Walker B; other site 930169003232 D-loop; other site 930169003233 H-loop/switch region; other site 930169003234 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 930169003235 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 930169003236 multimer interface [polypeptide binding]; other site 930169003237 active site 930169003238 catalytic triad [active] 930169003239 dimer interface [polypeptide binding]; other site 930169003240 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 930169003241 AAA domain; Region: AAA_22; pfam13401 930169003242 Walker A motif; other site 930169003243 ATP binding site [chemical binding]; other site 930169003244 Walker B motif; other site 930169003245 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930169003246 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 930169003247 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 930169003248 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 930169003249 putative active site [active] 930169003250 putative catalytic site [active] 930169003251 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 930169003252 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 930169003253 N-terminal plug; other site 930169003254 ligand-binding site [chemical binding]; other site 930169003255 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 930169003256 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930169003257 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169003258 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930169003259 aromatic acid decarboxylase; Validated; Region: PRK05920 930169003260 Flavoprotein; Region: Flavoprotein; pfam02441 930169003261 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 930169003262 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930169003263 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 930169003264 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 930169003265 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 930169003266 NlpE N-terminal domain; Region: NlpE; pfam04170 930169003267 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 930169003268 putative C-terminal domain interface [polypeptide binding]; other site 930169003269 putative GSH binding site (G-site) [chemical binding]; other site 930169003270 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169003271 putative dimer interface [polypeptide binding]; other site 930169003272 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 930169003273 putative N-terminal domain interface [polypeptide binding]; other site 930169003274 putative dimer interface [polypeptide binding]; other site 930169003275 putative substrate binding pocket (H-site) [chemical binding]; other site 930169003276 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 930169003277 putative cyanate transporter; Provisional; Region: cynX; PRK09705 930169003278 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169003279 MarR family; Region: MarR; pfam01047 930169003280 lipoyl synthase; Provisional; Region: PRK05481 930169003281 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 930169003282 FeS/SAM binding site; other site 930169003283 lipoate-protein ligase B; Provisional; Region: PRK14342 930169003284 Protein of unknown function (DUF493); Region: DUF493; pfam04359 930169003285 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930169003286 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 930169003287 homodimer interface [polypeptide binding]; other site 930169003288 substrate-cofactor binding pocket; other site 930169003289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169003290 catalytic residue [active] 930169003291 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 930169003292 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 930169003293 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 930169003294 rare lipoprotein A; Region: rlpA; TIGR00413 930169003295 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 930169003296 Sporulation related domain; Region: SPOR; pfam05036 930169003297 Transglycosylase SLT domain; Region: SLT_2; pfam13406 930169003298 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 930169003299 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169003300 catalytic residue [active] 930169003301 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 930169003302 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 930169003303 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 930169003304 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 930169003305 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 930169003306 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 930169003307 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 930169003308 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 930169003309 active site 930169003310 (T/H)XGH motif; other site 930169003311 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 930169003312 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 930169003313 putative catalytic cysteine [active] 930169003314 Leucine carboxyl methyltransferase; Region: LCM; cl01306 930169003315 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 930169003316 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 930169003317 Lipopolysaccharide-assembly; Region: LptE; cl01125 930169003318 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 930169003319 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 930169003320 HIGH motif; other site 930169003321 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 930169003322 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 930169003323 active site 930169003324 KMSKS motif; other site 930169003325 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 930169003326 tRNA binding surface [nucleotide binding]; other site 930169003327 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 930169003328 putative active site [active] 930169003329 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 930169003330 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 930169003331 high affinity sulphate transporter 1; Region: sulP; TIGR00815 930169003332 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930169003333 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930169003334 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 930169003335 Putative phosphatase (DUF442); Region: DUF442; cl17385 930169003336 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 930169003337 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 930169003338 SnoaL-like domain; Region: SnoaL_2; pfam12680 930169003339 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 930169003340 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 930169003341 putative active site [active] 930169003342 catalytic triad [active] 930169003343 putative dimer interface [polypeptide binding]; other site 930169003344 cyanate hydratase; Validated; Region: PRK02866 930169003345 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 930169003346 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 930169003347 oligomer interface [polypeptide binding]; other site 930169003348 active site 930169003349 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 930169003350 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 930169003351 Transporter associated domain; Region: CorC_HlyC; smart01091 930169003352 metal-binding heat shock protein; Provisional; Region: PRK00016 930169003353 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 930169003354 PhoH-like protein; Region: PhoH; pfam02562 930169003355 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 930169003356 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 930169003357 Walker A/P-loop; other site 930169003358 ATP binding site [chemical binding]; other site 930169003359 Q-loop/lid; other site 930169003360 ABC transporter signature motif; other site 930169003361 Walker B; other site 930169003362 D-loop; other site 930169003363 H-loop/switch region; other site 930169003364 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 930169003365 dimer interface [polypeptide binding]; other site 930169003366 conserved gate region; other site 930169003367 putative PBP binding loops; other site 930169003368 ABC-ATPase subunit interface; other site 930169003369 sulfate transport protein; Provisional; Region: cysT; CHL00187 930169003370 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 930169003371 dimer interface [polypeptide binding]; other site 930169003372 conserved gate region; other site 930169003373 putative PBP binding loops; other site 930169003374 ABC-ATPase subunit interface; other site 930169003375 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930169003376 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 930169003377 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 930169003378 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 930169003379 TRAM domain; Region: TRAM; pfam01938 930169003380 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 930169003381 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169003382 Cu(I) binding site [ion binding]; other site 930169003383 Protein of unknown function (DUF461); Region: DUF461; pfam04314 930169003384 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 930169003385 putative catalytic site [active] 930169003386 putative metal binding site [ion binding]; other site 930169003387 putative phosphate binding site [ion binding]; other site 930169003388 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 930169003389 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 930169003390 putative active site [active] 930169003391 Zn binding site [ion binding]; other site 930169003392 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 930169003393 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 930169003394 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 930169003395 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 930169003396 putative active site [active] 930169003397 PhoH-like protein; Region: PhoH; pfam02562 930169003398 OmpW family; Region: OmpW; cl17427 930169003399 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 930169003400 active site residue [active] 930169003401 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 930169003402 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 930169003403 ATP binding site [chemical binding]; other site 930169003404 Mg++ binding site [ion binding]; other site 930169003405 motif III; other site 930169003406 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 930169003407 nucleotide binding region [chemical binding]; other site 930169003408 ATP-binding site [chemical binding]; other site 930169003409 Protein of unknown function (DUF938); Region: DUF938; pfam06080 930169003410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169003411 short chain dehydrogenase; Provisional; Region: PRK07832 930169003412 NAD(P) binding site [chemical binding]; other site 930169003413 active site 930169003414 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 930169003415 BNR repeat-like domain; Region: BNR_2; pfam13088 930169003416 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 930169003417 Na binding site [ion binding]; other site 930169003418 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 930169003419 DNA-binding site [nucleotide binding]; DNA binding site 930169003420 RNA-binding motif; other site 930169003421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 930169003422 Protein of unknown function, DUF482; Region: DUF482; pfam04339 930169003423 Peptidase family M48; Region: Peptidase_M48; cl12018 930169003424 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 930169003425 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 930169003426 UbiA prenyltransferase family; Region: UbiA; pfam01040 930169003427 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 930169003428 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 930169003429 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 930169003430 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 930169003431 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 930169003432 active site 930169003433 uracil binding [chemical binding]; other site 930169003434 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 930169003435 Subunit III/VIIa interface [polypeptide binding]; other site 930169003436 Phospholipid binding site [chemical binding]; other site 930169003437 Subunit I/III interface [polypeptide binding]; other site 930169003438 Subunit III/VIb interface [polypeptide binding]; other site 930169003439 Subunit III/VIa interface; other site 930169003440 Subunit III/Vb interface [polypeptide binding]; other site 930169003441 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 930169003442 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 930169003443 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 930169003444 Subunit I/III interface [polypeptide binding]; other site 930169003445 D-pathway; other site 930169003446 Subunit I/VIIc interface [polypeptide binding]; other site 930169003447 Subunit I/IV interface [polypeptide binding]; other site 930169003448 Subunit I/II interface [polypeptide binding]; other site 930169003449 Low-spin heme (heme a) binding site [chemical binding]; other site 930169003450 Subunit I/VIIa interface [polypeptide binding]; other site 930169003451 Subunit I/VIa interface [polypeptide binding]; other site 930169003452 Dimer interface; other site 930169003453 Putative water exit pathway; other site 930169003454 Binuclear center (heme a3/CuB) [ion binding]; other site 930169003455 K-pathway; other site 930169003456 Subunit I/Vb interface [polypeptide binding]; other site 930169003457 Putative proton exit pathway; other site 930169003458 Subunit I/VIb interface; other site 930169003459 Subunit I/VIc interface [polypeptide binding]; other site 930169003460 Electron transfer pathway; other site 930169003461 Subunit I/VIIIb interface [polypeptide binding]; other site 930169003462 Subunit I/VIIb interface [polypeptide binding]; other site 930169003463 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 930169003464 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 930169003465 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 930169003466 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 930169003467 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 930169003468 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 930169003469 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 930169003470 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 930169003471 putative hydrolase; Provisional; Region: PRK11460 930169003472 ATP-dependent helicase HepA; Validated; Region: PRK04914 930169003473 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 930169003474 ATP binding site [chemical binding]; other site 930169003475 putative Mg++ binding site [ion binding]; other site 930169003476 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 930169003477 nucleotide binding region [chemical binding]; other site 930169003478 ATP-binding site [chemical binding]; other site 930169003479 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 930169003480 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169003481 non-specific DNA binding site [nucleotide binding]; other site 930169003482 salt bridge; other site 930169003483 sequence-specific DNA binding site [nucleotide binding]; other site 930169003484 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 930169003485 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169003486 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930169003487 putative active site [active] 930169003488 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 930169003489 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 930169003490 binding surface 930169003491 TPR motif; other site 930169003492 glutamate racemase; Provisional; Region: PRK00865 930169003493 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169003494 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 930169003495 ligand binding site [chemical binding]; other site 930169003496 flexible hinge region; other site 930169003497 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 930169003498 putative switch regulator; other site 930169003499 non-specific DNA interactions [nucleotide binding]; other site 930169003500 DNA binding site [nucleotide binding] 930169003501 sequence specific DNA binding site [nucleotide binding]; other site 930169003502 putative cAMP binding site [chemical binding]; other site 930169003503 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 930169003504 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169003505 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 930169003506 acyl-activating enzyme (AAE) consensus motif; other site 930169003507 putative active site [active] 930169003508 putative AMP binding site [chemical binding]; other site 930169003509 putative CoA binding site [chemical binding]; other site 930169003510 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169003511 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169003512 Walker A/P-loop; other site 930169003513 ATP binding site [chemical binding]; other site 930169003514 Q-loop/lid; other site 930169003515 ABC transporter signature motif; other site 930169003516 Walker B; other site 930169003517 D-loop; other site 930169003518 H-loop/switch region; other site 930169003519 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169003520 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 930169003521 TM-ABC transporter signature motif; other site 930169003522 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169003523 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 930169003524 TM-ABC transporter signature motif; other site 930169003525 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 930169003526 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169003527 putative ligand binding site [chemical binding]; other site 930169003528 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169003529 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169003530 Walker A/P-loop; other site 930169003531 ATP binding site [chemical binding]; other site 930169003532 Q-loop/lid; other site 930169003533 ABC transporter signature motif; other site 930169003534 Walker B; other site 930169003535 D-loop; other site 930169003536 H-loop/switch region; other site 930169003537 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169003538 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 930169003539 acyl-activating enzyme (AAE) consensus motif; other site 930169003540 active site 930169003541 AMP binding site [chemical binding]; other site 930169003542 CoA binding site [chemical binding]; other site 930169003543 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 930169003544 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 930169003545 Walker A motif; other site 930169003546 ATP binding site [chemical binding]; other site 930169003547 Walker B motif; other site 930169003548 arginine finger; other site 930169003549 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169003550 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169003551 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169003552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169003553 NAD(P) binding site [chemical binding]; other site 930169003554 active site 930169003555 urea carboxylase; Region: urea_carbox; TIGR02712 930169003556 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169003557 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169003558 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 930169003559 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 930169003560 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 930169003561 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 930169003562 carboxyltransferase (CT) interaction site; other site 930169003563 biotinylation site [posttranslational modification]; other site 930169003564 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 930169003565 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 930169003566 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 930169003567 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 930169003568 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 930169003569 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169003570 Walker A/P-loop; other site 930169003571 ATP binding site [chemical binding]; other site 930169003572 Q-loop/lid; other site 930169003573 ABC transporter signature motif; other site 930169003574 Walker B; other site 930169003575 D-loop; other site 930169003576 H-loop/switch region; other site 930169003577 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169003578 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 930169003579 putative PBP binding loops; other site 930169003580 dimer interface [polypeptide binding]; other site 930169003581 ABC-ATPase subunit interface; other site 930169003582 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 930169003583 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 930169003584 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 930169003585 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 930169003586 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 930169003587 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 930169003588 GIY-YIG motif/motif A; other site 930169003589 putative active site [active] 930169003590 putative metal binding site [ion binding]; other site 930169003591 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 930169003592 Repair protein; Region: Repair_PSII; pfam04536 930169003593 Repair protein; Region: Repair_PSII; cl01535 930169003594 HipA N-terminal domain; Region: Couple_hipA; cl11853 930169003595 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169003596 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930169003597 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 930169003598 Rrf2 family protein; Region: rrf2_super; TIGR00738 930169003599 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 930169003600 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 930169003601 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169003602 catalytic residue [active] 930169003603 Heme NO binding; Region: HNOB; pfam07700 930169003604 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 930169003605 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 930169003606 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 930169003607 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 930169003608 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 930169003609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169003610 catalytic residue [active] 930169003611 FeS assembly protein SufD; Region: sufD; TIGR01981 930169003612 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 930169003613 FeS assembly ATPase SufC; Region: sufC; TIGR01978 930169003614 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 930169003615 Walker A/P-loop; other site 930169003616 ATP binding site [chemical binding]; other site 930169003617 Q-loop/lid; other site 930169003618 ABC transporter signature motif; other site 930169003619 Walker B; other site 930169003620 D-loop; other site 930169003621 H-loop/switch region; other site 930169003622 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 930169003623 putative ABC transporter; Region: ycf24; CHL00085 930169003624 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 930169003625 active site 930169003626 multimer interface [polypeptide binding]; other site 930169003627 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 930169003628 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 930169003629 FeS/SAM binding site; other site 930169003630 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 930169003631 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 930169003632 TPR motif; other site 930169003633 binding surface 930169003634 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 930169003635 binding surface 930169003636 TPR motif; other site 930169003637 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 930169003638 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 930169003639 non-specific DNA binding site [nucleotide binding]; other site 930169003640 salt bridge; other site 930169003641 sequence-specific DNA binding site [nucleotide binding]; other site 930169003642 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 930169003643 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 930169003644 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 930169003645 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 930169003646 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 930169003647 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 930169003648 dimer interface [polypeptide binding]; other site 930169003649 motif 1; other site 930169003650 active site 930169003651 motif 2; other site 930169003652 motif 3; other site 930169003653 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 930169003654 anticodon binding site; other site 930169003655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 930169003656 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 930169003657 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 930169003658 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 930169003659 Trp docking motif [polypeptide binding]; other site 930169003660 active site 930169003661 GTP-binding protein Der; Reviewed; Region: PRK00093 930169003662 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 930169003663 G1 box; other site 930169003664 GTP/Mg2+ binding site [chemical binding]; other site 930169003665 Switch I region; other site 930169003666 G2 box; other site 930169003667 Switch II region; other site 930169003668 G3 box; other site 930169003669 G4 box; other site 930169003670 G5 box; other site 930169003671 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 930169003672 G1 box; other site 930169003673 GTP/Mg2+ binding site [chemical binding]; other site 930169003674 Switch I region; other site 930169003675 G2 box; other site 930169003676 G3 box; other site 930169003677 Switch II region; other site 930169003678 G4 box; other site 930169003679 G5 box; other site 930169003680 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169003681 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 930169003682 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 930169003683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169003684 HAMP domain; Region: HAMP; pfam00672 930169003685 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 930169003686 dimer interface [polypeptide binding]; other site 930169003687 phosphorylation site [posttranslational modification] 930169003688 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 930169003689 ATP binding site [chemical binding]; other site 930169003690 Mg2+ binding site [ion binding]; other site 930169003691 G-X-G motif; other site 930169003692 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169003693 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 930169003694 active site 930169003695 phosphorylation site [posttranslational modification] 930169003696 intermolecular recognition site; other site 930169003697 dimerization interface [polypeptide binding]; other site 930169003698 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 930169003699 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 930169003700 generic binding surface II; other site 930169003701 generic binding surface I; other site 930169003702 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 930169003703 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 930169003704 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 930169003705 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 930169003706 active site 930169003707 GMP synthase; Reviewed; Region: guaA; PRK00074 930169003708 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 930169003709 AMP/PPi binding site [chemical binding]; other site 930169003710 candidate oxyanion hole; other site 930169003711 catalytic triad [active] 930169003712 potential glutamine specificity residues [chemical binding]; other site 930169003713 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 930169003714 ATP Binding subdomain [chemical binding]; other site 930169003715 Ligand Binding sites [chemical binding]; other site 930169003716 Dimerization subdomain; other site 930169003717 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 930169003718 Dimerization subdomain; other site 930169003719 putative acetyltransferase; Provisional; Region: PRK03624 930169003720 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169003721 Coenzyme A binding pocket [chemical binding]; other site 930169003722 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 930169003723 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 930169003724 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 930169003725 nudix motif; other site 930169003726 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 930169003727 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 930169003728 dimerization interface [polypeptide binding]; other site 930169003729 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 930169003730 dimer interface [polypeptide binding]; other site 930169003731 phosphorylation site [posttranslational modification] 930169003732 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 930169003733 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 930169003734 ATP binding site [chemical binding]; other site 930169003735 Mg2+ binding site [ion binding]; other site 930169003736 G-X-G motif; other site 930169003737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169003738 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 930169003739 active site 930169003740 phosphorylation site [posttranslational modification] 930169003741 intermolecular recognition site; other site 930169003742 dimerization interface [polypeptide binding]; other site 930169003743 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 930169003744 DNA binding site [nucleotide binding] 930169003745 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 930169003746 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169003747 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169003748 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 930169003749 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 930169003750 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 930169003751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169003752 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 930169003753 DNA binding residues [nucleotide binding] 930169003754 fec operon regulator FecR; Reviewed; Region: PRK09774 930169003755 FecR protein; Region: FecR; pfam04773 930169003756 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169003757 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 930169003758 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 930169003759 N-terminal plug; other site 930169003760 ligand-binding site [chemical binding]; other site 930169003761 short chain dehydrogenase; Provisional; Region: PRK06500 930169003762 classical (c) SDRs; Region: SDR_c; cd05233 930169003763 NAD(P) binding site [chemical binding]; other site 930169003764 active site 930169003765 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169003766 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930169003767 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 930169003768 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169003769 NAD(P) binding site [chemical binding]; other site 930169003770 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 930169003771 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 930169003772 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 930169003773 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 930169003774 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 930169003775 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 930169003776 putative active site [active] 930169003777 putative metal binding site [ion binding]; other site 930169003778 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 930169003779 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 930169003780 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169003781 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169003782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169003783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169003784 AAA domain; Region: AAA_23; pfam13476 930169003785 P-loop containing region of AAA domain; Region: AAA_29; cl17516 930169003786 AAA domain; Region: AAA_21; pfam13304 930169003787 TIGR02646 family protein; Region: TIGR02646 930169003788 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 930169003789 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 930169003790 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169003791 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169003792 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169003793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169003794 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169003795 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169003796 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169003797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169003798 Transposase; Region: HTH_Tnp_1; cl17663 930169003799 Restriction endonuclease; Region: Mrr_cat; pfam04471 930169003800 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 930169003801 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 930169003802 ATP binding site [chemical binding]; other site 930169003803 putative Mg++ binding site [ion binding]; other site 930169003804 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 930169003805 nucleotide binding region [chemical binding]; other site 930169003806 ATP-binding site [chemical binding]; other site 930169003807 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 930169003808 ATP binding site [chemical binding]; other site 930169003809 Mg2+ binding site [ion binding]; other site 930169003810 G-X-G motif; other site 930169003811 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 930169003812 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 930169003813 cofactor binding site; other site 930169003814 DNA binding site [nucleotide binding] 930169003815 substrate interaction site [chemical binding]; other site 930169003816 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 930169003817 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 930169003818 additional DNA contacts [nucleotide binding]; other site 930169003819 mismatch recognition site; other site 930169003820 active site 930169003821 zinc binding site [ion binding]; other site 930169003822 DNA intercalation site [nucleotide binding]; other site 930169003823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169003824 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 930169003825 non-specific DNA binding site [nucleotide binding]; other site 930169003826 salt bridge; other site 930169003827 sequence-specific DNA binding site [nucleotide binding]; other site 930169003828 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 930169003829 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 930169003830 active site 930169003831 substrate binding site [chemical binding]; other site 930169003832 FMN binding site [chemical binding]; other site 930169003833 putative catalytic residues [active] 930169003834 Fic/DOC family; Region: Fic; pfam02661 930169003835 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169003836 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 930169003837 DNA binding residues [nucleotide binding] 930169003838 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169003839 FecR protein; Region: FecR; pfam04773 930169003840 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169003841 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169003842 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 930169003843 N-terminal plug; other site 930169003844 ligand-binding site [chemical binding]; other site 930169003845 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169003846 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169003847 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 930169003848 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 930169003849 S-adenosylmethionine binding site [chemical binding]; other site 930169003850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169003851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169003852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169003853 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 930169003854 putative effector binding pocket; other site 930169003855 dimerization interface [polypeptide binding]; other site 930169003856 Isochorismatase family; Region: Isochorismatase; pfam00857 930169003857 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 930169003858 catalytic triad [active] 930169003859 dimer interface [polypeptide binding]; other site 930169003860 conserved cis-peptide bond; other site 930169003861 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169003862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169003863 Isochorismatase family; Region: Isochorismatase; pfam00857 930169003864 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 930169003865 catalytic triad [active] 930169003866 dimer interface [polypeptide binding]; other site 930169003867 conserved cis-peptide bond; other site 930169003868 Cupin; Region: Cupin_6; pfam12852 930169003869 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169003870 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003872 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 930169003873 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169003874 active site 930169003875 catalytic tetrad [active] 930169003876 HipA N-terminal domain; Region: Couple_hipA; cl11853 930169003877 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169003878 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930169003879 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 930169003880 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169003881 non-specific DNA binding site [nucleotide binding]; other site 930169003882 salt bridge; other site 930169003883 sequence-specific DNA binding site [nucleotide binding]; other site 930169003884 Nuclease-related domain; Region: NERD; pfam08378 930169003885 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 930169003886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169003887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169003888 NADH(P)-binding; Region: NAD_binding_10; pfam13460 930169003889 NAD(P) binding site [chemical binding]; other site 930169003890 active site 930169003891 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 930169003892 active site 930169003893 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 930169003894 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 930169003895 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169003896 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930169003897 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 930169003898 Carboxylesterase family; Region: COesterase; pfam00135 930169003899 substrate binding pocket [chemical binding]; other site 930169003900 Carboxylesterase family; Region: COesterase; pfam00135 930169003901 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 930169003902 substrate binding pocket [chemical binding]; other site 930169003903 catalytic triad [active] 930169003904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169003905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003906 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 930169003907 active site 930169003908 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 930169003909 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 930169003910 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 930169003911 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930169003912 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169003913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169003914 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 930169003915 homotrimer interaction site [polypeptide binding]; other site 930169003916 putative active site [active] 930169003917 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_5; cd07238 930169003918 dimer interface [polypeptide binding]; other site 930169003919 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169003920 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 930169003921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003922 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169003923 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 930169003924 Di-iron ligands [ion binding]; other site 930169003925 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 930169003926 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 930169003927 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 930169003928 active site 930169003929 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169003930 dimer interface [polypeptide binding]; other site 930169003931 substrate binding site [chemical binding]; other site 930169003932 catalytic residue [active] 930169003933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169003934 short chain dehydrogenase; Provisional; Region: PRK12939 930169003935 NAD(P) binding site [chemical binding]; other site 930169003936 active site 930169003937 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 930169003938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169003939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003940 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 930169003941 non-specific DNA binding site [nucleotide binding]; other site 930169003942 salt bridge; other site 930169003943 sequence-specific DNA binding site [nucleotide binding]; other site 930169003944 Cholesterol-capturing domain; Region: MENTAL; pfam10457 930169003945 Cupin; Region: Cupin_6; pfam12852 930169003946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169003948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003949 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 930169003950 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 930169003951 putative substrate translocation pore; other site 930169003952 Protein of unknown function (DUF2695); Region: DUF2695; pfam10905 930169003953 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 930169003954 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 930169003955 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 930169003956 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 930169003957 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 930169003958 N-terminal plug; other site 930169003959 ligand-binding site [chemical binding]; other site 930169003960 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 930169003961 NADH(P)-binding; Region: NAD_binding_10; pfam13460 930169003962 NAD(P) binding site [chemical binding]; other site 930169003963 putative active site [active] 930169003964 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930169003965 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169003966 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 930169003967 putative C-terminal domain interface [polypeptide binding]; other site 930169003968 putative GSH binding site (G-site) [chemical binding]; other site 930169003969 putative dimer interface [polypeptide binding]; other site 930169003970 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 930169003971 N-terminal domain interface [polypeptide binding]; other site 930169003972 dimer interface [polypeptide binding]; other site 930169003973 substrate binding pocket (H-site) [chemical binding]; other site 930169003974 Domain of unknown function (DUF427); Region: DUF427; pfam04248 930169003975 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 930169003976 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 930169003977 intracellular protease, PfpI family; Region: PfpI; TIGR01382 930169003978 conserved cys residue [active] 930169003979 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 930169003980 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 930169003981 [2Fe-2S] cluster binding site [ion binding]; other site 930169003982 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169003983 hydrophobic ligand binding site; other site 930169003984 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 930169003985 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169003986 active site 930169003987 catalytic tetrad [active] 930169003988 tellurium resistance terB-like protein; Region: terB_like; cd07177 930169003989 metal binding site [ion binding]; metal-binding site 930169003990 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930169003991 Cupin domain; Region: Cupin_2; cl17218 930169003992 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169003993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169003994 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 930169003995 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 930169003996 conserved cys residue [active] 930169003997 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 930169003998 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 930169003999 conserved cys residue [active] 930169004000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004001 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 930169004002 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 930169004003 Multicopper oxidase; Region: Cu-oxidase; pfam00394 930169004004 Uncharacterized conserved protein [Function unknown]; Region: COG1262 930169004005 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 930169004006 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 930169004007 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 930169004008 Cu(I) binding site [ion binding]; other site 930169004009 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 930169004010 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 930169004011 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 930169004012 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169004013 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 930169004014 S-adenosylmethionine binding site [chemical binding]; other site 930169004015 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169004016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169004017 Coenzyme A binding pocket [chemical binding]; other site 930169004018 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169004019 MarR family; Region: MarR; pfam01047 930169004020 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 930169004021 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 930169004022 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 930169004023 Trp docking motif [polypeptide binding]; other site 930169004024 putative active site [active] 930169004025 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 930169004026 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 930169004027 putative substrate translocation pore; other site 930169004028 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 930169004029 Uncharacterized conserved protein [Function unknown]; Region: COG3791 930169004030 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169004031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004032 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 930169004033 dimerization interface [polypeptide binding]; other site 930169004034 substrate binding pocket [chemical binding]; other site 930169004035 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 930169004036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169004037 FAD binding site [chemical binding]; other site 930169004038 substrate binding pocket [chemical binding]; other site 930169004039 catalytic base [active] 930169004040 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169004041 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169004042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 930169004043 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169004044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004045 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169004046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004047 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930169004048 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 930169004049 putative substrate translocation pore; other site 930169004050 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 930169004051 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 930169004052 salt bridge; other site 930169004053 non-specific DNA binding site [nucleotide binding]; other site 930169004054 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169004055 sequence-specific DNA binding site [nucleotide binding]; other site 930169004056 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169004057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004058 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 930169004059 putative effector binding pocket; other site 930169004060 putative dimerization interface [polypeptide binding]; other site 930169004061 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 930169004062 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 930169004063 putative substrate translocation pore; other site 930169004064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169004065 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004066 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 930169004067 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 930169004068 catalytic triad [active] 930169004069 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 930169004070 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169004071 catalytic residue [active] 930169004072 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 930169004073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169004074 DNA-binding site [nucleotide binding]; DNA binding site 930169004075 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 930169004076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169004077 homodimer interface [polypeptide binding]; other site 930169004078 catalytic residue [active] 930169004079 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 930169004080 NADH(P)-binding; Region: NAD_binding_10; pfam13460 930169004081 NAD binding site [chemical binding]; other site 930169004082 substrate binding site [chemical binding]; other site 930169004083 putative active site [active] 930169004084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169004085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004086 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 930169004087 putative effector binding pocket; other site 930169004088 dimerization interface [polypeptide binding]; other site 930169004089 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 930169004090 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169004091 catalytic residues [active] 930169004092 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 930169004093 eyelet of channel; other site 930169004094 trimer interface [polypeptide binding]; other site 930169004095 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169004096 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 930169004097 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 930169004098 active site 930169004099 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 930169004100 homotrimer interaction site [polypeptide binding]; other site 930169004101 putative active site [active] 930169004102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 930169004103 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 930169004104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169004105 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 930169004106 putative DNA binding site [nucleotide binding]; other site 930169004107 putative Zn2+ binding site [ion binding]; other site 930169004108 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169004109 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 930169004110 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 930169004111 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 930169004112 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 930169004113 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 930169004114 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 930169004115 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 930169004116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 930169004117 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 930169004118 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169004119 NAD(P) binding site [chemical binding]; other site 930169004120 catalytic residues [active] 930169004121 Tetratricopeptide repeat; Region: TPR_12; pfam13424 930169004122 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 930169004123 binding surface 930169004124 TPR motif; other site 930169004125 Tetratricopeptide repeat; Region: TPR_12; pfam13424 930169004126 Tetratricopeptide repeat; Region: TPR_12; pfam13424 930169004127 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169004128 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 930169004129 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 930169004130 N-terminal plug; other site 930169004131 ligand-binding site [chemical binding]; other site 930169004132 fec operon regulator FecR; Reviewed; Region: PRK09774 930169004133 FecR protein; Region: FecR; pfam04773 930169004134 RNA polymerase sigma factor; Reviewed; Region: PRK12523 930169004135 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169004136 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 930169004137 DNA binding residues [nucleotide binding] 930169004138 REJ domain; Region: REJ; pfam02010 930169004139 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169004140 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 930169004141 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 930169004142 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 930169004143 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169004144 FecR protein; Region: FecR; pfam04773 930169004145 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 930169004146 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169004147 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 930169004148 DNA binding residues [nucleotide binding] 930169004149 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 930169004150 CoenzymeA binding site [chemical binding]; other site 930169004151 subunit interaction site [polypeptide binding]; other site 930169004152 PHB binding site; other site 930169004153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169004154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004155 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 930169004156 heme binding pocket [chemical binding]; other site 930169004157 heme ligand [chemical binding]; other site 930169004158 tonB-system energizer ExbB; Region: exbB; TIGR02797 930169004159 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930169004160 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 930169004161 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 930169004162 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 930169004163 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 930169004164 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 930169004165 intersubunit interface [polypeptide binding]; other site 930169004166 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 930169004167 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 930169004168 ABC-ATPase subunit interface; other site 930169004169 dimer interface [polypeptide binding]; other site 930169004170 putative PBP binding regions; other site 930169004171 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 930169004172 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930169004173 Walker A/P-loop; other site 930169004174 ATP binding site [chemical binding]; other site 930169004175 Q-loop/lid; other site 930169004176 ABC transporter signature motif; other site 930169004177 Walker B; other site 930169004178 D-loop; other site 930169004179 H-loop/switch region; other site 930169004180 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 930169004181 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 930169004182 metal binding site [ion binding]; metal-binding site 930169004183 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 930169004184 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 930169004185 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930169004186 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 930169004187 ABC-ATPase subunit interface; other site 930169004188 dimer interface [polypeptide binding]; other site 930169004189 putative PBP binding regions; other site 930169004190 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930169004191 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 930169004192 ABC-ATPase subunit interface; other site 930169004193 dimer interface [polypeptide binding]; other site 930169004194 putative PBP binding regions; other site 930169004195 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 930169004196 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 930169004197 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 930169004198 DEAD_2; Region: DEAD_2; pfam06733 930169004199 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 930169004200 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 930169004201 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 930169004202 substrate binding site [chemical binding]; other site 930169004203 oxyanion hole (OAH) forming residues; other site 930169004204 trimer interface [polypeptide binding]; other site 930169004205 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 930169004206 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 930169004207 dimer interface [polypeptide binding]; other site 930169004208 active site 930169004209 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 930169004210 putative efflux protein, MATE family; Region: matE; TIGR00797 930169004211 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 930169004212 CoenzymeA binding site [chemical binding]; other site 930169004213 subunit interaction site [polypeptide binding]; other site 930169004214 PHB binding site; other site 930169004215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169004216 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004217 DoxX; Region: DoxX; pfam07681 930169004218 TM2 domain; Region: TM2; cl00984 930169004219 TM2 domain; Region: TM2; pfam05154 930169004220 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 930169004221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169004222 ATP-grasp domain; Region: ATP-grasp; pfam02222 930169004223 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 930169004224 nucleoside/Zn binding site; other site 930169004225 dimer interface [polypeptide binding]; other site 930169004226 catalytic motif [active] 930169004227 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930169004228 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 930169004229 substrate binding pocket [chemical binding]; other site 930169004230 membrane-bound complex binding site; other site 930169004231 hinge residues; other site 930169004232 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 930169004233 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169004234 catalytic residue [active] 930169004235 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 930169004236 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 930169004237 dimerization interface [polypeptide binding]; other site 930169004238 ATP binding site [chemical binding]; other site 930169004239 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 930169004240 dimerization interface [polypeptide binding]; other site 930169004241 ATP binding site [chemical binding]; other site 930169004242 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 930169004243 putative active site [active] 930169004244 catalytic triad [active] 930169004245 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 930169004246 CoenzymeA binding site [chemical binding]; other site 930169004247 subunit interaction site [polypeptide binding]; other site 930169004248 PHB binding site; other site 930169004249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 930169004250 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 930169004251 nudix motif; other site 930169004252 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 930169004253 putative active site [active] 930169004254 putative CoA binding site [chemical binding]; other site 930169004255 nudix motif; other site 930169004256 metal binding site [ion binding]; metal-binding site 930169004257 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 930169004258 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 930169004259 trimer interface [polypeptide binding]; other site 930169004260 putative metal binding site [ion binding]; other site 930169004261 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 930169004262 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 930169004263 nucleophile elbow; other site 930169004264 Phosphoenolpyruvate carboxylase; Region: PEPcase_2; cl17501 930169004265 putative transposase OrfB; Reviewed; Region: PHA02517 930169004266 Integrase core domain; Region: rve; pfam00665 930169004267 Integrase core domain; Region: rve_3; pfam13683 930169004268 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 930169004269 Domain of unknown function DUF21; Region: DUF21; pfam01595 930169004270 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 930169004271 Transporter associated domain; Region: CorC_HlyC; smart01091 930169004272 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 930169004273 signal recognition particle protein; Provisional; Region: PRK10867 930169004274 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 930169004275 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 930169004276 P loop; other site 930169004277 GTP binding site [chemical binding]; other site 930169004278 Signal peptide binding domain; Region: SRP_SPB; pfam02978 930169004279 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 930169004280 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 930169004281 RimM N-terminal domain; Region: RimM; pfam01782 930169004282 PRC-barrel domain; Region: PRC; pfam05239 930169004283 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 930169004284 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 930169004285 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 930169004286 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 930169004287 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 930169004288 active site 930169004289 Int/Topo IB signature motif; other site 930169004290 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 930169004291 dimerization domain [polypeptide binding]; other site 930169004292 dimer interface [polypeptide binding]; other site 930169004293 catalytic residues [active] 930169004294 aminotransferase; Validated; Region: PRK08175 930169004295 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 930169004296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169004297 homodimer interface [polypeptide binding]; other site 930169004298 catalytic residue [active] 930169004299 homoserine dehydrogenase; Provisional; Region: PRK06349 930169004300 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 930169004301 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 930169004302 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 930169004303 threonine synthase; Reviewed; Region: PRK06721 930169004304 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 930169004305 homodimer interface [polypeptide binding]; other site 930169004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169004307 catalytic residue [active] 930169004308 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930169004309 Beta-lactamase; Region: Beta-lactamase; pfam00144 930169004310 Protein of unknown function (DUF962); Region: DUF962; cl01879 930169004311 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 930169004312 heme-binding site [chemical binding]; other site 930169004313 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169004314 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169004315 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 930169004316 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 930169004317 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 930169004318 Predicted methyltransferase [General function prediction only]; Region: COG3897 930169004319 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 930169004320 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930169004321 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 930169004322 protein binding site [polypeptide binding]; other site 930169004323 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 930169004324 protein binding site [polypeptide binding]; other site 930169004325 choline dehydrogenase; Validated; Region: PRK02106 930169004326 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169004327 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 930169004328 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 930169004329 active site 930169004330 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 930169004331 MG2 domain; Region: A2M_N; pfam01835 930169004332 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 930169004333 surface patch; other site 930169004334 thioester region; other site 930169004335 specificity defining residues; other site 930169004336 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 930169004337 Transglycosylase; Region: Transgly; pfam00912 930169004338 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930169004339 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 930169004340 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 930169004341 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 930169004342 DNA binding residues [nucleotide binding] 930169004343 putative dimer interface [polypeptide binding]; other site 930169004344 hypothetical protein; Provisional; Region: PRK09266 930169004345 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930169004346 substrate-cofactor binding pocket; other site 930169004347 homodimer interface [polypeptide binding]; other site 930169004348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169004349 catalytic residue [active] 930169004350 BCCT family transporter; Region: BCCT; pfam02028 930169004351 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 930169004352 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 930169004353 putative active site [active] 930169004354 Zn binding site [ion binding]; other site 930169004355 ABC transporter ATPase component; Reviewed; Region: PRK11147 930169004356 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 930169004357 Walker A/P-loop; other site 930169004358 ATP binding site [chemical binding]; other site 930169004359 ABC transporter signature motif; other site 930169004360 Walker B; other site 930169004361 D-loop; other site 930169004362 H-loop/switch region; other site 930169004363 ABC transporter; Region: ABC_tran_2; pfam12848 930169004364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169004365 AAA domain; Region: AAA_28; pfam13521 930169004366 Predicted ATPase [General function prediction only]; Region: COG3911 930169004367 hypothetical protein; Provisional; Region: PRK11281 930169004368 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 930169004369 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930169004370 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930169004371 putative active site [active] 930169004372 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 930169004373 TPR motif; other site 930169004374 TPR repeat; Region: TPR_11; pfam13414 930169004375 binding surface 930169004376 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 930169004377 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 930169004378 selenophosphate synthetase; Provisional; Region: PRK00943 930169004379 dimerization interface [polypeptide binding]; other site 930169004380 putative ATP binding site [chemical binding]; other site 930169004381 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 930169004382 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 930169004383 active site residue [active] 930169004384 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 930169004385 Walker A motif; other site 930169004386 ATP binding site [chemical binding]; other site 930169004387 Walker B motif; other site 930169004388 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 930169004389 active site 2 [active] 930169004390 active site 1 [active] 930169004391 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 930169004392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004393 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 930169004394 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169004395 FAD binding pocket [chemical binding]; other site 930169004396 FAD binding motif [chemical binding]; other site 930169004397 phosphate binding motif [ion binding]; other site 930169004398 beta-alpha-beta structure motif; other site 930169004399 NAD binding pocket [chemical binding]; other site 930169004400 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 930169004401 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930169004402 catalytic loop [active] 930169004403 iron binding site [ion binding]; other site 930169004404 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 930169004405 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 930169004406 putative di-iron ligands [ion binding]; other site 930169004407 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169004408 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169004409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004410 SdiA-regulated; Region: SdiA-regulated; pfam06977 930169004411 SdiA-regulated; Region: SdiA-regulated; cd09971 930169004412 putative active site [active] 930169004413 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 930169004414 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 930169004415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169004416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169004417 NAD(P) binding site [chemical binding]; other site 930169004418 active site 930169004419 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 930169004420 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 930169004421 dimer interface [polypeptide binding]; other site 930169004422 active site 930169004423 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 930169004424 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 930169004425 active site 930169004426 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 930169004427 catalytic triad [active] 930169004428 dimer interface [polypeptide binding]; other site 930169004429 Predicted membrane protein [Function unknown]; Region: COG3212 930169004430 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 930169004431 Predicted membrane protein [Function unknown]; Region: COG3212 930169004432 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 930169004433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169004434 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 930169004435 active site 930169004436 phosphorylation site [posttranslational modification] 930169004437 intermolecular recognition site; other site 930169004438 dimerization interface [polypeptide binding]; other site 930169004439 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 930169004440 DNA binding site [nucleotide binding] 930169004441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169004442 HAMP domain; Region: HAMP; pfam00672 930169004443 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 930169004444 ATP binding site [chemical binding]; other site 930169004445 Mg2+ binding site [ion binding]; other site 930169004446 G-X-G motif; other site 930169004447 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169004448 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004449 WHG domain; Region: WHG; pfam13305 930169004450 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 930169004451 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 930169004452 active site 930169004453 FMN binding site [chemical binding]; other site 930169004454 2,4-decadienoyl-CoA binding site; other site 930169004455 catalytic residue [active] 930169004456 4Fe-4S cluster binding site [ion binding]; other site 930169004457 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 930169004458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169004459 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169004460 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169004461 active site 930169004462 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169004463 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169004464 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169004465 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930169004466 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 930169004467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169004468 ligand binding site [chemical binding]; other site 930169004469 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169004470 metal binding site [ion binding]; metal-binding site 930169004471 active site 930169004472 I-site; other site 930169004473 GAF domain; Region: GAF; cl17456 930169004474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169004475 active site 930169004476 I-site; other site 930169004477 metal binding site [ion binding]; metal-binding site 930169004478 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 930169004479 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 930169004480 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 930169004481 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 930169004482 conserved cys residue [active] 930169004483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169004485 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 930169004486 Sel1 repeat; Region: Sel1; cl02723 930169004487 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 930169004488 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 930169004489 Dodecin; Region: Dodecin; pfam07311 930169004490 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 930169004491 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 930169004492 ATP binding site [chemical binding]; other site 930169004493 Mg++ binding site [ion binding]; other site 930169004494 motif III; other site 930169004495 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 930169004496 nucleotide binding region [chemical binding]; other site 930169004497 ATP-binding site [chemical binding]; other site 930169004498 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 930169004499 putative RNA binding site [nucleotide binding]; other site 930169004500 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 930169004501 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 930169004502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 930169004503 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 930169004504 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169004505 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 930169004506 active site 930169004507 phosphorylation site [posttranslational modification] 930169004508 intermolecular recognition site; other site 930169004509 dimerization interface [polypeptide binding]; other site 930169004510 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 930169004511 DNA binding site [nucleotide binding] 930169004512 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169004513 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 930169004514 dimerization interface [polypeptide binding]; other site 930169004515 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 930169004516 dimer interface [polypeptide binding]; other site 930169004517 phosphorylation site [posttranslational modification] 930169004518 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 930169004519 ATP binding site [chemical binding]; other site 930169004520 Mg2+ binding site [ion binding]; other site 930169004521 G-X-G motif; other site 930169004522 enterobactin receptor protein; Provisional; Region: PRK13483 930169004523 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 930169004524 N-terminal plug; other site 930169004525 ligand-binding site [chemical binding]; other site 930169004526 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 930169004527 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 930169004528 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 930169004529 Active Sites [active] 930169004530 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 930169004531 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169004532 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169004533 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 930169004534 Zn binding site [ion binding]; other site 930169004535 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 930169004536 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 930169004537 iron-sulfur cluster [ion binding]; other site 930169004538 [2Fe-2S] cluster binding site [ion binding]; other site 930169004539 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169004540 hydrophobic ligand binding site; other site 930169004541 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169004542 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 930169004543 FMN-binding pocket [chemical binding]; other site 930169004544 flavin binding motif; other site 930169004545 phosphate binding motif [ion binding]; other site 930169004546 beta-alpha-beta structure motif; other site 930169004547 NAD binding pocket [chemical binding]; other site 930169004548 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 930169004549 catalytic loop [active] 930169004550 iron binding site [ion binding]; other site 930169004551 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 930169004552 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 930169004553 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 930169004554 NAD binding site [chemical binding]; other site 930169004555 catalytic Zn binding site [ion binding]; other site 930169004556 structural Zn binding site [ion binding]; other site 930169004557 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 930169004558 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 930169004559 heme-binding residues [chemical binding]; other site 930169004560 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 930169004561 binding surface 930169004562 TPR motif; other site 930169004563 TPR repeat; Region: TPR_11; pfam13414 930169004564 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 930169004565 binding surface 930169004566 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930169004567 TPR motif; other site 930169004568 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 930169004569 Sulfatase; Region: Sulfatase; pfam00884 930169004570 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 930169004571 eyelet of channel; other site 930169004572 trimer interface [polypeptide binding]; other site 930169004573 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 930169004574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004575 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 930169004576 dimerization interface [polypeptide binding]; other site 930169004577 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 930169004578 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 930169004579 active site 930169004580 citrylCoA binding site [chemical binding]; other site 930169004581 oxalacetate binding site [chemical binding]; other site 930169004582 coenzyme A binding site [chemical binding]; other site 930169004583 catalytic triad [active] 930169004584 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169004585 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169004586 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169004587 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 930169004588 N-terminal plug; other site 930169004589 ligand-binding site [chemical binding]; other site 930169004590 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169004591 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 930169004592 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169004593 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 930169004594 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169004595 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169004596 ABC transporter; Region: ABC_tran_2; pfam12848 930169004597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 930169004598 Pirin-related protein [General function prediction only]; Region: COG1741 930169004599 Pirin; Region: Pirin; pfam02678 930169004600 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 930169004601 putative hydrophobic ligand binding site [chemical binding]; other site 930169004602 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 930169004603 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 930169004604 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 930169004605 putative DNA binding site [nucleotide binding]; other site 930169004606 putative Zn2+ binding site [ion binding]; other site 930169004607 dimerization interface [polypeptide binding]; other site 930169004608 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 930169004609 active site 930169004610 NTP binding site [chemical binding]; other site 930169004611 metal binding triad [ion binding]; metal-binding site 930169004612 antibiotic binding site [chemical binding]; other site 930169004613 Zeta toxin; Region: Zeta_toxin; pfam06414 930169004614 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 930169004615 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 930169004616 dimer interface [polypeptide binding]; other site 930169004617 active site 930169004618 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 930169004619 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 930169004620 substrate binding site [chemical binding]; other site 930169004621 oxyanion hole (OAH) forming residues; other site 930169004622 trimer interface [polypeptide binding]; other site 930169004623 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 930169004624 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930169004625 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 930169004626 DHH family; Region: DHH; pfam01368 930169004627 DHHA1 domain; Region: DHHA1; pfam02272 930169004628 peptide chain release factor 2; Provisional; Region: PRK08787 930169004629 This domain is found in peptide chain release factors; Region: PCRF; smart00937 930169004630 RF-1 domain; Region: RF-1; pfam00472 930169004631 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 930169004632 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 930169004633 dimer interface [polypeptide binding]; other site 930169004634 putative anticodon binding site; other site 930169004635 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 930169004636 motif 1; other site 930169004637 active site 930169004638 motif 2; other site 930169004639 motif 3; other site 930169004640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 930169004641 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 930169004642 ligand binding site [chemical binding]; other site 930169004643 active site 930169004644 UGI interface [polypeptide binding]; other site 930169004645 catalytic site [active] 930169004646 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 930169004647 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 930169004648 substrate binding site [chemical binding]; other site 930169004649 oxyanion hole (OAH) forming residues; other site 930169004650 trimer interface [polypeptide binding]; other site 930169004651 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 930169004652 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 930169004653 Nitronate monooxygenase; Region: NMO; pfam03060 930169004654 FMN binding site [chemical binding]; other site 930169004655 substrate binding site [chemical binding]; other site 930169004656 putative catalytic residue [active] 930169004657 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 930169004658 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 930169004659 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 930169004660 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 930169004661 L-aspartate oxidase; Provisional; Region: PRK09077 930169004662 L-aspartate oxidase; Provisional; Region: PRK06175 930169004663 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930169004664 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 930169004665 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169004666 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 930169004667 DNA binding residues [nucleotide binding] 930169004668 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 930169004669 anti-sigma E factor; Provisional; Region: rseB; PRK09455 930169004670 MucB/RseB family; Region: MucB_RseB; pfam03888 930169004671 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 930169004672 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 930169004673 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930169004674 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 930169004675 protein binding site [polypeptide binding]; other site 930169004676 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 930169004677 protein binding site [polypeptide binding]; other site 930169004678 GTP-binding protein LepA; Provisional; Region: PRK05433 930169004679 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 930169004680 G1 box; other site 930169004681 putative GEF interaction site [polypeptide binding]; other site 930169004682 GTP/Mg2+ binding site [chemical binding]; other site 930169004683 Switch I region; other site 930169004684 G2 box; other site 930169004685 G3 box; other site 930169004686 Switch II region; other site 930169004687 G4 box; other site 930169004688 G5 box; other site 930169004689 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 930169004690 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 930169004691 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 930169004692 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 930169004693 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 930169004694 Catalytic site [active] 930169004695 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 930169004696 ribonuclease III; Reviewed; Region: rnc; PRK00102 930169004697 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 930169004698 dimerization interface [polypeptide binding]; other site 930169004699 active site 930169004700 metal binding site [ion binding]; metal-binding site 930169004701 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 930169004702 dsRNA binding site [nucleotide binding]; other site 930169004703 GTPase Era; Reviewed; Region: era; PRK00089 930169004704 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 930169004705 G1 box; other site 930169004706 GTP/Mg2+ binding site [chemical binding]; other site 930169004707 Switch I region; other site 930169004708 G2 box; other site 930169004709 Switch II region; other site 930169004710 G3 box; other site 930169004711 G4 box; other site 930169004712 G5 box; other site 930169004713 KH domain; Region: KH_2; pfam07650 930169004714 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 930169004715 Recombination protein O N terminal; Region: RecO_N; pfam11967 930169004716 Recombination protein O C terminal; Region: RecO_C; pfam02565 930169004717 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 930169004718 active site 930169004719 hydrophilic channel; other site 930169004720 dimerization interface [polypeptide binding]; other site 930169004721 catalytic residues [active] 930169004722 active site lid [active] 930169004723 HAMP domain; Region: HAMP; pfam00672 930169004724 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 930169004725 dimer interface [polypeptide binding]; other site 930169004726 phosphorylation site [posttranslational modification] 930169004727 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 930169004728 ATP binding site [chemical binding]; other site 930169004729 Mg2+ binding site [ion binding]; other site 930169004730 G-X-G motif; other site 930169004731 Response regulator receiver domain; Region: Response_reg; pfam00072 930169004732 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 930169004733 active site 930169004734 phosphorylation site [posttranslational modification] 930169004735 intermolecular recognition site; other site 930169004736 dimerization interface [polypeptide binding]; other site 930169004737 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 930169004738 putative binding surface; other site 930169004739 active site 930169004740 cysteine synthase B; Region: cysM; TIGR01138 930169004741 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 930169004742 dimer interface [polypeptide binding]; other site 930169004743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169004744 catalytic residue [active] 930169004745 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 930169004746 active site 930169004747 catalytic site [active] 930169004748 substrate binding site [chemical binding]; other site 930169004749 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 930169004750 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 930169004751 TRAM domain; Region: TRAM; pfam01938 930169004752 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 930169004753 S-adenosylmethionine binding site [chemical binding]; other site 930169004754 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 930169004755 HD domain; Region: HD_4; pfam13328 930169004756 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 930169004757 synthetase active site [active] 930169004758 NTP binding site [chemical binding]; other site 930169004759 metal binding site [ion binding]; metal-binding site 930169004760 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 930169004761 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 930169004762 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 930169004763 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 930169004764 homodimer interface [polypeptide binding]; other site 930169004765 metal binding site [ion binding]; metal-binding site 930169004766 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 930169004767 homodimer interface [polypeptide binding]; other site 930169004768 active site 930169004769 putative chemical substrate binding site [chemical binding]; other site 930169004770 metal binding site [ion binding]; metal-binding site 930169004771 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169004772 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 930169004773 eyelet of channel; other site 930169004774 trimer interface [polypeptide binding]; other site 930169004775 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169004776 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 930169004777 eyelet of channel; other site 930169004778 trimer interface [polypeptide binding]; other site 930169004779 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 930169004780 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 930169004781 dimer interface [polypeptide binding]; other site 930169004782 active site 930169004783 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 930169004784 active site 1 [active] 930169004785 dimer interface [polypeptide binding]; other site 930169004786 active site 2 [active] 930169004787 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 930169004788 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 930169004789 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169004790 catalytic residues [active] 930169004791 central insert; other site 930169004792 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 930169004793 adenylate kinase; Reviewed; Region: adk; PRK00279 930169004794 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 930169004795 AMP-binding site [chemical binding]; other site 930169004796 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 930169004797 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 930169004798 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 930169004799 heme binding site [chemical binding]; other site 930169004800 ferroxidase pore; other site 930169004801 ferroxidase diiron center [ion binding]; other site 930169004802 oxaloacetate decarboxylase; Provisional; Region: PRK14040 930169004803 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 930169004804 active site 930169004805 catalytic residues [active] 930169004806 metal binding site [ion binding]; metal-binding site 930169004807 homodimer binding site [polypeptide binding]; other site 930169004808 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 930169004809 carboxyltransferase (CT) interaction site; other site 930169004810 biotinylation site [posttranslational modification]; other site 930169004811 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 930169004812 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 930169004813 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 930169004814 NMT1-like family; Region: NMT1_2; pfam13379 930169004815 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169004816 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 930169004817 dimer interface [polypeptide binding]; other site 930169004818 conserved gate region; other site 930169004819 putative PBP binding loops; other site 930169004820 ABC-ATPase subunit interface; other site 930169004821 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169004822 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169004823 Walker A/P-loop; other site 930169004824 ATP binding site [chemical binding]; other site 930169004825 Q-loop/lid; other site 930169004826 ABC transporter signature motif; other site 930169004827 Walker B; other site 930169004828 D-loop; other site 930169004829 H-loop/switch region; other site 930169004830 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 930169004831 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 930169004832 active site 930169004833 phosphorylation site [posttranslational modification] 930169004834 intermolecular recognition site; other site 930169004835 ANTAR domain; Region: ANTAR; pfam03861 930169004836 NMT1-like family; Region: NMT1_2; pfam13379 930169004837 NMT1/THI5 like; Region: NMT1; pfam09084 930169004838 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 930169004839 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 930169004840 THF binding site; other site 930169004841 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 930169004842 substrate binding site [chemical binding]; other site 930169004843 THF binding site; other site 930169004844 zinc-binding site [ion binding]; other site 930169004845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169004846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004847 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 930169004848 putative dimerization interface [polypeptide binding]; other site 930169004849 multidrug efflux system protein; Provisional; Region: PRK11431 930169004850 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 930169004851 putative active site [active] 930169004852 putative metal binding residues [ion binding]; other site 930169004853 signature motif; other site 930169004854 putative dimer interface [polypeptide binding]; other site 930169004855 putative phosphate binding site [ion binding]; other site 930169004856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169004857 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 930169004858 Walker A/P-loop; other site 930169004859 ATP binding site [chemical binding]; other site 930169004860 Q-loop/lid; other site 930169004861 ABC transporter signature motif; other site 930169004862 Walker B; other site 930169004863 D-loop; other site 930169004864 H-loop/switch region; other site 930169004865 heme exporter protein CcmB; Region: ccmB; TIGR01190 930169004866 heme exporter protein CcmC; Region: ccmC; TIGR01191 930169004867 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 930169004868 CcmE; Region: CcmE; pfam03100 930169004869 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 930169004870 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 930169004871 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 930169004872 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 930169004873 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 930169004874 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 930169004875 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169004876 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 930169004877 C-terminal domain interface [polypeptide binding]; other site 930169004878 GSH binding site (G-site) [chemical binding]; other site 930169004879 dimer interface [polypeptide binding]; other site 930169004880 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 930169004881 N-terminal domain interface [polypeptide binding]; other site 930169004882 substrate binding pocket (H-site) [chemical binding]; other site 930169004883 Predicted membrane protein [Function unknown]; Region: COG2259 930169004884 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 930169004885 short chain dehydrogenase; Provisional; Region: PRK12937 930169004886 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 930169004887 NADP binding site [chemical binding]; other site 930169004888 homodimer interface [polypeptide binding]; other site 930169004889 active site 930169004890 substrate binding site [chemical binding]; other site 930169004891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169004892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004893 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 930169004894 putative effector binding pocket; other site 930169004895 putative dimerization interface [polypeptide binding]; other site 930169004896 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 930169004897 Ligand Binding Site [chemical binding]; other site 930169004898 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 930169004899 Ligand Binding Site [chemical binding]; other site 930169004900 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 930169004901 catalytic core [active] 930169004902 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 930169004903 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930169004904 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 930169004905 Walker A/P-loop; other site 930169004906 ATP binding site [chemical binding]; other site 930169004907 Q-loop/lid; other site 930169004908 ABC transporter signature motif; other site 930169004909 Walker B; other site 930169004910 D-loop; other site 930169004911 H-loop/switch region; other site 930169004912 inner membrane transport permease; Provisional; Region: PRK15066 930169004913 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930169004914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 930169004915 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 930169004916 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 930169004917 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 930169004918 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 930169004919 cyclase homology domain; Region: CHD; cd07302 930169004920 nucleotidyl binding site; other site 930169004921 metal binding site [ion binding]; metal-binding site 930169004922 dimer interface [polypeptide binding]; other site 930169004923 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 930169004924 putative FMN binding site [chemical binding]; other site 930169004925 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 930169004926 Predicted transcriptional regulators [Transcription]; Region: COG1695 930169004927 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 930169004928 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 930169004929 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 930169004930 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 930169004931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169004932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169004933 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 930169004934 dimerization interface [polypeptide binding]; other site 930169004935 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169004936 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169004937 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 930169004938 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 930169004939 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169004940 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 930169004941 putative ligand binding site [chemical binding]; other site 930169004942 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 930169004943 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169004944 TM-ABC transporter signature motif; other site 930169004945 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169004946 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 930169004947 TM-ABC transporter signature motif; other site 930169004948 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169004949 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169004950 Walker A/P-loop; other site 930169004951 ATP binding site [chemical binding]; other site 930169004952 Q-loop/lid; other site 930169004953 ABC transporter signature motif; other site 930169004954 Walker B; other site 930169004955 D-loop; other site 930169004956 H-loop/switch region; other site 930169004957 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169004958 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169004959 Walker A/P-loop; other site 930169004960 ATP binding site [chemical binding]; other site 930169004961 Q-loop/lid; other site 930169004962 ABC transporter signature motif; other site 930169004963 Walker B; other site 930169004964 D-loop; other site 930169004965 H-loop/switch region; other site 930169004966 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 930169004967 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 930169004968 dimer interface [polypeptide binding]; other site 930169004969 active site 930169004970 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169004971 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 930169004972 NAD binding site [chemical binding]; other site 930169004973 homodimer interface [polypeptide binding]; other site 930169004974 active site 930169004975 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 930169004976 putative active site [active] 930169004977 putative catalytic site [active] 930169004978 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169004979 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169004980 active site 930169004981 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169004982 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169004983 active site 930169004984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169004985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169004986 enoyl-CoA hydratase; Provisional; Region: PRK06688 930169004987 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 930169004988 substrate binding site [chemical binding]; other site 930169004989 oxyanion hole (OAH) forming residues; other site 930169004990 trimer interface [polypeptide binding]; other site 930169004991 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 930169004992 catalytic core [active] 930169004993 Molybdopterin oxidoreductase; Region: Molybdopterin; pfam00384 930169004994 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169004995 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169004996 active site 930169004997 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 930169004998 Phosphotransferase enzyme family; Region: APH; pfam01636 930169004999 putative active site [active] 930169005000 putative substrate binding site [chemical binding]; other site 930169005001 ATP binding site [chemical binding]; other site 930169005002 short chain dehydrogenase; Provisional; Region: PRK07035 930169005003 classical (c) SDRs; Region: SDR_c; cd05233 930169005004 NAD(P) binding site [chemical binding]; other site 930169005005 active site 930169005006 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 930169005007 classical (c) SDRs; Region: SDR_c; cd05233 930169005008 NAD(P) binding site [chemical binding]; other site 930169005009 active site 930169005010 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 930169005011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169005012 NAD(P) binding site [chemical binding]; other site 930169005013 active site 930169005014 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 930169005015 Predicted amidohydrolase [General function prediction only]; Region: COG0388 930169005016 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 930169005017 putative active site [active] 930169005018 catalytic triad [active] 930169005019 putative dimer interface [polypeptide binding]; other site 930169005020 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 930169005021 putative active site [active] 930169005022 heme pocket [chemical binding]; other site 930169005023 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 930169005024 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 930169005025 Walker A motif; other site 930169005026 ATP binding site [chemical binding]; other site 930169005027 Walker B motif; other site 930169005028 arginine finger; other site 930169005029 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 930169005030 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169005031 NAD binding site [chemical binding]; other site 930169005032 catalytic residues [active] 930169005033 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169005034 classical (c) SDRs; Region: SDR_c; cd05233 930169005035 NAD(P) binding site [chemical binding]; other site 930169005036 active site 930169005037 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 930169005038 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169005039 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169005040 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 930169005041 CoenzymeA binding site [chemical binding]; other site 930169005042 subunit interaction site [polypeptide binding]; other site 930169005043 PHB binding site; other site 930169005044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169005045 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 930169005046 active site 930169005047 phosphorylation site [posttranslational modification] 930169005048 intermolecular recognition site; other site 930169005049 dimerization interface [polypeptide binding]; other site 930169005050 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 930169005051 DNA binding residues [nucleotide binding] 930169005052 dimerization interface [polypeptide binding]; other site 930169005053 Uncharacterized conserved protein [Function unknown]; Region: COG3287 930169005054 FIST N domain; Region: FIST; pfam08495 930169005055 FIST C domain; Region: FIST_C; pfam10442 930169005056 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169005057 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 930169005058 dimer interface [polypeptide binding]; other site 930169005059 phosphorylation site [posttranslational modification] 930169005060 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 930169005061 ATP binding site [chemical binding]; other site 930169005062 Mg2+ binding site [ion binding]; other site 930169005063 G-X-G motif; other site 930169005064 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 930169005065 Response regulator receiver domain; Region: Response_reg; pfam00072 930169005066 active site 930169005067 phosphorylation site [posttranslational modification] 930169005068 intermolecular recognition site; other site 930169005069 dimerization interface [polypeptide binding]; other site 930169005070 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 930169005071 active site residue [active] 930169005072 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 930169005073 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 930169005074 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 930169005075 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 930169005076 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 930169005077 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 930169005078 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 930169005079 dimer interface [polypeptide binding]; other site 930169005080 Trp docking motif [polypeptide binding]; other site 930169005081 active site 930169005082 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 930169005083 Predicted secreted protein [Function unknown]; Region: COG5501 930169005084 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 930169005085 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 930169005086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169005087 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 930169005088 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169005089 NAD(P) binding site [chemical binding]; other site 930169005090 catalytic residues [active] 930169005091 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 930169005092 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 930169005093 putative NAD(P) binding site [chemical binding]; other site 930169005094 putative substrate binding site [chemical binding]; other site 930169005095 catalytic Zn binding site [ion binding]; other site 930169005096 structural Zn binding site [ion binding]; other site 930169005097 Gram-negative porin; Region: Porin_4; pfam13609 930169005098 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 930169005099 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 930169005100 Protein export membrane protein; Region: SecD_SecF; cl14618 930169005101 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 930169005102 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169005103 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169005104 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 930169005105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169005106 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 930169005107 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 930169005108 classical (c) SDRs; Region: SDR_c; cd05233 930169005109 NAD(P) binding site [chemical binding]; other site 930169005110 active site 930169005111 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 930169005112 putative active site [active] 930169005113 putative substrate binding site [chemical binding]; other site 930169005114 ATP binding site [chemical binding]; other site 930169005115 Survival protein SurE; Region: SurE; cl00448 930169005116 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 930169005117 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169005118 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 930169005119 acyl-activating enzyme (AAE) consensus motif; other site 930169005120 putative AMP binding site [chemical binding]; other site 930169005121 putative active site [active] 930169005122 putative CoA binding site [chemical binding]; other site 930169005123 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169005124 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 930169005125 TM-ABC transporter signature motif; other site 930169005126 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169005127 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 930169005128 TM-ABC transporter signature motif; other site 930169005129 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169005130 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169005131 Walker A/P-loop; other site 930169005132 ATP binding site [chemical binding]; other site 930169005133 Q-loop/lid; other site 930169005134 ABC transporter signature motif; other site 930169005135 Walker B; other site 930169005136 D-loop; other site 930169005137 H-loop/switch region; other site 930169005138 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169005139 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169005140 Walker A/P-loop; other site 930169005141 ATP binding site [chemical binding]; other site 930169005142 Q-loop/lid; other site 930169005143 ABC transporter signature motif; other site 930169005144 Walker B; other site 930169005145 D-loop; other site 930169005146 H-loop/switch region; other site 930169005147 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169005148 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_3; cd06336 930169005149 putative ligand binding site [chemical binding]; other site 930169005150 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 930169005151 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 930169005152 substrate binding site [chemical binding]; other site 930169005153 oxyanion hole (OAH) forming residues; other site 930169005154 trimer interface [polypeptide binding]; other site 930169005155 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 930169005156 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930169005157 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930169005158 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169005159 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 930169005160 FAD binding site [chemical binding]; other site 930169005161 substrate binding site [chemical binding]; other site 930169005162 catalytic base [active] 930169005163 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169005164 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169005165 active site 930169005166 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 930169005167 Prostaglandin dehydrogenases; Region: PGDH; cd05288 930169005168 NAD(P) binding site [chemical binding]; other site 930169005169 substrate binding site [chemical binding]; other site 930169005170 dimer interface [polypeptide binding]; other site 930169005171 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 930169005172 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169005173 putative substrate translocation pore; other site 930169005174 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 930169005175 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 930169005176 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 930169005177 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 930169005178 malic enzyme; Reviewed; Region: PRK12862 930169005179 Malic enzyme, N-terminal domain; Region: malic; pfam00390 930169005180 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 930169005181 putative NAD(P) binding site [chemical binding]; other site 930169005182 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 930169005183 aldolase II superfamily protein; Provisional; Region: PRK07044 930169005184 intersubunit interface [polypeptide binding]; other site 930169005185 active site 930169005186 Zn2+ binding site [ion binding]; other site 930169005187 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 930169005188 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 930169005189 NAD(P) binding site [chemical binding]; other site 930169005190 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169005191 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 930169005192 oligomeric interface; other site 930169005193 putative active site [active] 930169005194 homodimer interface [polypeptide binding]; other site 930169005195 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 930169005196 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 930169005197 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169005198 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169005199 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 930169005200 CoA binding domain; Region: CoA_binding_2; pfam13380 930169005201 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 930169005202 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 930169005203 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 930169005204 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 930169005205 dimer interaction site [polypeptide binding]; other site 930169005206 substrate-binding tunnel; other site 930169005207 active site 930169005208 catalytic site [active] 930169005209 substrate binding site [chemical binding]; other site 930169005210 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169005211 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 930169005212 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169005213 active site 930169005214 enoyl-CoA hydratase; Provisional; Region: PRK06688 930169005215 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 930169005216 substrate binding site [chemical binding]; other site 930169005217 oxyanion hole (OAH) forming residues; other site 930169005218 trimer interface [polypeptide binding]; other site 930169005219 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169005220 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169005221 active site 930169005222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169005223 NAD(P) binding site [chemical binding]; other site 930169005224 active site 930169005225 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169005226 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169005227 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169005228 DctM-like transporters; Region: DctM; pfam06808 930169005229 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 930169005230 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 930169005231 active site 930169005232 oxalacetate binding site [chemical binding]; other site 930169005233 citrylCoA binding site [chemical binding]; other site 930169005234 coenzyme A binding site [chemical binding]; other site 930169005235 catalytic triad [active] 930169005236 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169005237 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169005238 active site 930169005239 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 930169005240 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 930169005241 dimer interface [polypeptide binding]; other site 930169005242 active site 930169005243 Transcriptional regulators [Transcription]; Region: MarR; COG1846 930169005244 MarR family; Region: MarR; pfam01047 930169005245 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 930169005246 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 930169005247 Predicted membrane protein [Function unknown]; Region: COG3650 930169005248 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169005249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169005250 Transposase IS200 like; Region: Y1_Tnp; pfam01797 930169005251 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169005252 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 930169005253 NADP binding site [chemical binding]; other site 930169005254 dimer interface [polypeptide binding]; other site 930169005255 Uncharacterized conserved protein [Function unknown]; Region: COG1739 930169005256 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 930169005257 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 930169005258 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 930169005259 polysaccharide export protein Wza; Provisional; Region: PRK15078 930169005260 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 930169005261 SLBB domain; Region: SLBB; pfam10531 930169005262 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 930169005263 Low molecular weight phosphatase family; Region: LMWPc; cd00115 930169005264 active site 930169005265 tyrosine kinase; Provisional; Region: PRK11519 930169005266 Chain length determinant protein; Region: Wzz; pfam02706 930169005267 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 930169005268 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 930169005269 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 930169005270 transmembrane helices; other site 930169005271 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 930169005272 TrkA-C domain; Region: TrkA_C; pfam02080 930169005273 TrkA-C domain; Region: TrkA_C; pfam02080 930169005274 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 930169005275 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 930169005276 ligand-binding site [chemical binding]; other site 930169005277 transcriptional activator RfaH; Region: RfaH; TIGR01955 930169005278 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 930169005279 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 930169005280 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 930169005281 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 930169005282 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169005283 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 930169005284 non-specific DNA binding site [nucleotide binding]; other site 930169005285 salt bridge; other site 930169005286 sequence-specific DNA binding site [nucleotide binding]; other site 930169005287 HipA N-terminal domain; Region: Couple_hipA; pfam13657 930169005288 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 930169005289 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169005290 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930169005291 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 930169005292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169005293 Beta-Casp domain; Region: Beta-Casp; smart01027 930169005294 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 930169005295 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 930169005296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169005297 NAD(P) binding site [chemical binding]; other site 930169005298 active site 930169005299 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 930169005300 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 930169005301 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 930169005302 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930169005303 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 930169005304 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 930169005305 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 930169005306 putative trimer interface [polypeptide binding]; other site 930169005307 putative active site [active] 930169005308 putative substrate binding site [chemical binding]; other site 930169005309 putative CoA binding site [chemical binding]; other site 930169005310 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 930169005311 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 930169005312 inhibitor-cofactor binding pocket; inhibition site 930169005313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169005314 catalytic residue [active] 930169005315 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 930169005316 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 930169005317 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 930169005318 trimer interface [polypeptide binding]; other site 930169005319 active site 930169005320 substrate binding site [chemical binding]; other site 930169005321 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 930169005322 CoA binding site [chemical binding]; other site 930169005323 O-Antigen ligase; Region: Wzy_C; pfam04932 930169005324 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 930169005325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169005326 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 930169005327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169005328 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 930169005329 Bacterial sugar transferase; Region: Bac_transf; pfam02397 930169005330 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 930169005331 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 930169005332 putative trimer interface [polypeptide binding]; other site 930169005333 putative CoA binding site [chemical binding]; other site 930169005334 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 930169005335 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 930169005336 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 930169005337 inhibitor-cofactor binding pocket; inhibition site 930169005338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169005339 catalytic residue [active] 930169005340 Transposase; Region: HTH_Tnp_1; cl17663 930169005341 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169005342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169005343 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169005344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169005345 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169005346 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169005347 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 930169005348 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169005349 active site 930169005350 O-Antigen ligase; Region: Wzy_C; pfam04932 930169005351 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 930169005352 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 930169005353 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 930169005354 sequence-specific DNA binding site [nucleotide binding]; other site 930169005355 salt bridge; other site 930169005356 Putative addiction module component; Region: Unstab_antitox; pfam09720 930169005357 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 930169005358 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 930169005359 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169005360 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 930169005361 DUF35 OB-fold domain; Region: DUF35; pfam01796 930169005362 lipid-transfer protein; Provisional; Region: PRK07855 930169005363 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 930169005364 active site 930169005365 AMP-binding domain protein; Validated; Region: PRK08315 930169005366 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169005367 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 930169005368 acyl-activating enzyme (AAE) consensus motif; other site 930169005369 putative AMP binding site [chemical binding]; other site 930169005370 putative active site [active] 930169005371 putative CoA binding site [chemical binding]; other site 930169005372 UDP-glucose 4-epimerase; Region: PLN02240 930169005373 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 930169005374 NAD binding site [chemical binding]; other site 930169005375 homodimer interface [polypeptide binding]; other site 930169005376 active site 930169005377 substrate binding site [chemical binding]; other site 930169005378 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 930169005379 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 930169005380 putative trimer interface [polypeptide binding]; other site 930169005381 putative CoA binding site [chemical binding]; other site 930169005382 Uncharacterized conserved protein [Function unknown]; Region: COG1434 930169005383 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 930169005384 putative active site [active] 930169005385 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 930169005386 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 930169005387 NAD(P) binding site [chemical binding]; other site 930169005388 homodimer interface [polypeptide binding]; other site 930169005389 substrate binding site [chemical binding]; other site 930169005390 active site 930169005391 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 930169005392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169005393 DNA-binding site [nucleotide binding]; DNA binding site 930169005394 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 930169005395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169005396 homodimer interface [polypeptide binding]; other site 930169005397 catalytic residue [active] 930169005398 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 930169005399 putative substrate translocation pore; other site 930169005400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169005401 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 930169005402 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 930169005403 active site 930169005404 tetramer interface; other site 930169005405 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 930169005406 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 930169005407 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 930169005408 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 930169005409 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 930169005410 active site 930169005411 dimer interface [polypeptide binding]; other site 930169005412 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 930169005413 dimer interface [polypeptide binding]; other site 930169005414 active site 930169005415 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 930169005416 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 930169005417 active site 930169005418 substrate binding site [chemical binding]; other site 930169005419 metal binding site [ion binding]; metal-binding site 930169005420 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 930169005421 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 930169005422 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 930169005423 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 930169005424 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 930169005425 binding surface 930169005426 TPR motif; other site 930169005427 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930169005428 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930169005429 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 930169005430 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 930169005431 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930169005432 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 930169005433 Walker A/P-loop; other site 930169005434 ATP binding site [chemical binding]; other site 930169005435 Q-loop/lid; other site 930169005436 ABC transporter signature motif; other site 930169005437 Walker B; other site 930169005438 D-loop; other site 930169005439 H-loop/switch region; other site 930169005440 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 930169005441 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 930169005442 active site 930169005443 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 930169005444 active site 930169005445 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 930169005446 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930169005447 UDP-galactopyranose mutase; Region: GLF; pfam03275 930169005448 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 930169005449 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 930169005450 active site 930169005451 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 930169005452 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 930169005453 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 930169005454 active site 930169005455 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169005456 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 930169005457 S-adenosylmethionine binding site [chemical binding]; other site 930169005458 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169005459 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 930169005460 putative ADP-binding pocket [chemical binding]; other site 930169005461 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 930169005462 Bacterial sugar transferase; Region: Bac_transf; pfam02397 930169005463 aspartate aminotransferase; Provisional; Region: PRK05764 930169005464 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 930169005465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169005466 homodimer interface [polypeptide binding]; other site 930169005467 catalytic residue [active] 930169005468 excinuclease ABC subunit B; Provisional; Region: PRK05298 930169005469 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 930169005470 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 930169005471 ATP-binding site [chemical binding]; other site 930169005472 ATP binding site [chemical binding]; other site 930169005473 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 930169005474 nucleotide binding region [chemical binding]; other site 930169005475 ATP-binding site [chemical binding]; other site 930169005476 Ultra-violet resistance protein B; Region: UvrB; pfam12344 930169005477 UvrB/uvrC motif; Region: UVR; pfam02151 930169005478 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 930169005479 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 930169005480 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 930169005481 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930169005482 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930169005483 Transposase IS200 like; Region: Y1_Tnp; pfam01797 930169005484 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 930169005485 HIRAN domain; Region: HIRAN; pfam08797 930169005486 Uncharacterized conserved protein [Function unknown]; Region: COG3791 930169005487 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169005488 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169005489 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169005490 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 930169005491 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 930169005492 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 930169005493 Walker A/P-loop; other site 930169005494 ATP binding site [chemical binding]; other site 930169005495 Q-loop/lid; other site 930169005496 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 930169005497 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 930169005498 ABC transporter signature motif; other site 930169005499 Walker B; other site 930169005500 D-loop; other site 930169005501 H-loop/switch region; other site 930169005502 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 930169005503 FtsZ protein binding site [polypeptide binding]; other site 930169005504 Ligase N family; Region: LIGANc; smart00532 930169005505 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 930169005506 nucleotide binding pocket [chemical binding]; other site 930169005507 K-X-D-G motif; other site 930169005508 catalytic site [active] 930169005509 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 930169005510 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 930169005511 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 930169005512 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 930169005513 Dimer interface [polypeptide binding]; other site 930169005514 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 930169005515 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169005516 catalytic residue [active] 930169005517 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 930169005518 Uncharacterized conserved protein [Function unknown]; Region: COG4121 930169005519 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 930169005520 Predicted permeases [General function prediction only]; Region: COG0679 930169005521 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 930169005522 dimer interface [polypeptide binding]; other site 930169005523 phosphorylation site [posttranslational modification] 930169005524 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 930169005525 ATP binding site [chemical binding]; other site 930169005526 Mg2+ binding site [ion binding]; other site 930169005527 G-X-G motif; other site 930169005528 Response regulator receiver domain; Region: Response_reg; pfam00072 930169005529 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 930169005530 active site 930169005531 phosphorylation site [posttranslational modification] 930169005532 intermolecular recognition site; other site 930169005533 dimerization interface [polypeptide binding]; other site 930169005534 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 930169005535 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 930169005536 putative active site [active] 930169005537 putative FMN binding site [chemical binding]; other site 930169005538 putative substrate binding site [chemical binding]; other site 930169005539 putative catalytic residue [active] 930169005540 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930169005541 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 930169005542 S-adenosylmethionine binding site [chemical binding]; other site 930169005543 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930169005544 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 930169005545 S-adenosylmethionine binding site [chemical binding]; other site 930169005546 SCP-2 sterol transfer family; Region: SCP2; pfam02036 930169005547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 930169005548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 930169005549 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 930169005550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169005551 transcriptional activator TtdR; Provisional; Region: PRK09801 930169005552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169005553 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 930169005554 putative effector binding pocket; other site 930169005555 dimerization interface [polypeptide binding]; other site 930169005556 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 930169005557 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169005558 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169005559 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 930169005560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169005561 acyl-activating enzyme (AAE) consensus motif; other site 930169005562 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 930169005563 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169005564 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930169005565 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930169005566 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 930169005567 carboxyltransferase (CT) interaction site; other site 930169005568 biotinylation site [posttranslational modification]; other site 930169005569 enoyl-CoA hydratase; Provisional; Region: PRK05995 930169005570 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 930169005571 substrate binding site [chemical binding]; other site 930169005572 oxyanion hole (OAH) forming residues; other site 930169005573 trimer interface [polypeptide binding]; other site 930169005574 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169005575 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169005576 active site 930169005577 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 930169005578 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169005579 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169005580 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169005581 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 930169005582 NAD(P) binding site [chemical binding]; other site 930169005583 substrate binding site [chemical binding]; other site 930169005584 homotetramer interface [polypeptide binding]; other site 930169005585 active site 930169005586 homodimer interface [polypeptide binding]; other site 930169005587 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 930169005588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169005589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169005590 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 930169005591 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169005592 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 930169005593 ligand binding site [chemical binding]; other site 930169005594 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169005595 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 930169005596 ligand binding site [chemical binding]; other site 930169005597 flexible hinge region; other site 930169005598 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 930169005599 active site residue [active] 930169005600 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 930169005601 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 930169005602 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 930169005603 aminopeptidase N; Provisional; Region: pepN; PRK14015 930169005604 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 930169005605 active site 930169005606 Zn binding site [ion binding]; other site 930169005607 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 930169005608 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 930169005609 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 930169005610 quinone interaction residues [chemical binding]; other site 930169005611 active site 930169005612 catalytic residues [active] 930169005613 FMN binding site [chemical binding]; other site 930169005614 substrate binding site [chemical binding]; other site 930169005615 Ribosome modulation factor; Region: RMF; pfam04957 930169005616 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 930169005617 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 930169005618 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 930169005619 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 930169005620 S-adenosylmethionine binding site [chemical binding]; other site 930169005621 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 930169005622 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 930169005623 active site 930169005624 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 930169005625 LexA repressor; Validated; Region: PRK00215 930169005626 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 930169005627 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 930169005628 Catalytic site [active] 930169005629 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169005630 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 930169005631 ligand binding site [chemical binding]; other site 930169005632 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 930169005633 Ligand Binding Site [chemical binding]; other site 930169005634 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 930169005635 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 930169005636 active site 930169005637 interdomain interaction site; other site 930169005638 putative metal-binding site [ion binding]; other site 930169005639 nucleotide binding site [chemical binding]; other site 930169005640 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 930169005641 domain I; other site 930169005642 DNA binding groove [nucleotide binding] 930169005643 phosphate binding site [ion binding]; other site 930169005644 domain II; other site 930169005645 domain III; other site 930169005646 nucleotide binding site [chemical binding]; other site 930169005647 catalytic site [active] 930169005648 domain IV; other site 930169005649 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930169005650 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 930169005651 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 930169005652 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 930169005653 Domain of unknown function DUF21; Region: DUF21; pfam01595 930169005654 FOG: CBS domain [General function prediction only]; Region: COG0517 930169005655 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 930169005656 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169005657 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169005658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 930169005659 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 930169005660 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 930169005661 beta-hexosaminidase; Provisional; Region: PRK05337 930169005662 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 930169005663 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930169005664 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169005665 active site 930169005666 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 930169005667 Protein of unknown function DUF72; Region: DUF72; pfam01904 930169005668 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 930169005669 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 930169005670 Substrate binding site [chemical binding]; other site 930169005671 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 930169005672 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 930169005673 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 930169005674 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 930169005675 E3 interaction surface; other site 930169005676 lipoyl attachment site [posttranslational modification]; other site 930169005677 e3 binding domain; Region: E3_binding; pfam02817 930169005678 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 930169005679 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 930169005680 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 930169005681 alpha subunit interface [polypeptide binding]; other site 930169005682 TPP binding site [chemical binding]; other site 930169005683 heterodimer interface [polypeptide binding]; other site 930169005684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 930169005685 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 930169005686 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 930169005687 TPP-binding site [chemical binding]; other site 930169005688 tetramer interface [polypeptide binding]; other site 930169005689 heterodimer interface [polypeptide binding]; other site 930169005690 phosphorylation loop region [posttranslational modification] 930169005691 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 930169005692 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 930169005693 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 930169005694 NAD binding site [chemical binding]; other site 930169005695 Phe binding site; other site 930169005696 HI0933-like protein; Region: HI0933_like; pfam03486 930169005697 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 930169005698 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 930169005699 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 930169005700 ATP binding site [chemical binding]; other site 930169005701 putative Mg++ binding site [ion binding]; other site 930169005702 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 930169005703 nucleotide binding region [chemical binding]; other site 930169005704 ATP-binding site [chemical binding]; other site 930169005705 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 930169005706 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 930169005707 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 930169005708 active site 930169005709 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 930169005710 catalytic triad [active] 930169005711 dimer interface [polypeptide binding]; other site 930169005712 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 930169005713 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 930169005714 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 930169005715 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 930169005716 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 930169005717 E3 interaction surface; other site 930169005718 lipoyl attachment site [posttranslational modification]; other site 930169005719 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 930169005720 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 930169005721 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 930169005722 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 930169005723 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 930169005724 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 930169005725 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 930169005726 catalytic loop [active] 930169005727 iron binding site [ion binding]; other site 930169005728 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 930169005729 FAD binding pocket [chemical binding]; other site 930169005730 FAD binding motif [chemical binding]; other site 930169005731 phosphate binding motif [ion binding]; other site 930169005732 beta-alpha-beta structure motif; other site 930169005733 NAD binding pocket [chemical binding]; other site 930169005734 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 930169005735 ApbE family; Region: ApbE; pfam02424 930169005736 Protein of unknown function (DUF539); Region: DUF539; cl01129 930169005737 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 930169005738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169005739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169005740 Coenzyme A binding pocket [chemical binding]; other site 930169005741 Peptidase_C39 like family; Region: DUF3335; pfam11814 930169005742 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 930169005743 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 930169005744 active site 930169005745 nucleophile elbow; other site 930169005746 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 930169005747 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 930169005748 active site 930169005749 catalytic site [active] 930169005750 metal binding site [ion binding]; metal-binding site 930169005751 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169005752 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 930169005753 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 930169005754 Predicted deacetylase [General function prediction only]; Region: COG3233 930169005755 putative active site [active] 930169005756 putative Zn binding site [ion binding]; other site 930169005757 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 930169005758 active site 930169005759 transcriptional activator TtdR; Provisional; Region: PRK09801 930169005760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169005761 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 930169005762 putative effector binding pocket; other site 930169005763 dimerization interface [polypeptide binding]; other site 930169005764 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 930169005765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169005766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169005767 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 930169005768 putative effector binding pocket; other site 930169005769 dimerization interface [polypeptide binding]; other site 930169005770 glutathionine S-transferase; Provisional; Region: PRK10542 930169005771 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 930169005772 C-terminal domain interface [polypeptide binding]; other site 930169005773 GSH binding site (G-site) [chemical binding]; other site 930169005774 dimer interface [polypeptide binding]; other site 930169005775 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 930169005776 dimer interface [polypeptide binding]; other site 930169005777 N-terminal domain interface [polypeptide binding]; other site 930169005778 substrate binding pocket (H-site) [chemical binding]; other site 930169005779 Nitronate monooxygenase; Region: NMO; pfam03060 930169005780 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 930169005781 FMN binding site [chemical binding]; other site 930169005782 substrate binding site [chemical binding]; other site 930169005783 putative catalytic residue [active] 930169005784 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 930169005785 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 930169005786 putative active site; other site 930169005787 catalytic triad [active] 930169005788 putative dimer interface [polypeptide binding]; other site 930169005789 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 930169005790 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 930169005791 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 930169005792 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 930169005793 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930169005794 FtsX-like permease family; Region: FtsX; pfam02687 930169005795 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 930169005796 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930169005797 Walker A/P-loop; other site 930169005798 ATP binding site [chemical binding]; other site 930169005799 Q-loop/lid; other site 930169005800 ABC transporter signature motif; other site 930169005801 Walker B; other site 930169005802 D-loop; other site 930169005803 H-loop/switch region; other site 930169005804 BCCT family transporter; Region: BCCT; cl00569 930169005805 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 930169005806 Protein of unknown function DUF58; Region: DUF58; pfam01882 930169005807 MoxR-like ATPases [General function prediction only]; Region: COG0714 930169005808 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 930169005809 Walker A motif; other site 930169005810 ATP binding site [chemical binding]; other site 930169005811 Walker B motif; other site 930169005812 arginine finger; other site 930169005813 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 930169005814 Integral membrane protein DUF95; Region: DUF95; pfam01944 930169005815 RDD family; Region: RDD; pfam06271 930169005816 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 930169005817 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169005818 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169005819 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 930169005820 ArsC family; Region: ArsC; pfam03960 930169005821 catalytic residues [active] 930169005822 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 930169005823 Acylphosphatase; Region: Acylphosphatase; pfam00708 930169005824 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169005825 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 930169005826 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 930169005827 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 930169005828 dimer interaction site [polypeptide binding]; other site 930169005829 substrate-binding tunnel; other site 930169005830 substrate binding site [chemical binding]; other site 930169005831 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 930169005832 dimer interaction site [polypeptide binding]; other site 930169005833 substrate-binding tunnel; other site 930169005834 active site 930169005835 catalytic site [active] 930169005836 substrate binding site [chemical binding]; other site 930169005837 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169005838 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169005839 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169005840 acyl-activating enzyme (AAE) consensus motif; other site 930169005841 acyl-activating enzyme (AAE) consensus motif; other site 930169005842 putative AMP binding site [chemical binding]; other site 930169005843 putative active site [active] 930169005844 putative CoA binding site [chemical binding]; other site 930169005845 NHL repeat; Region: NHL; pfam01436 930169005846 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 930169005847 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 930169005848 substrate binding site [chemical binding]; other site 930169005849 oxyanion hole (OAH) forming residues; other site 930169005850 trimer interface [polypeptide binding]; other site 930169005851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169005852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169005853 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169005854 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 930169005855 putative ligand binding site [chemical binding]; other site 930169005856 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169005857 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169005858 Walker A/P-loop; other site 930169005859 ATP binding site [chemical binding]; other site 930169005860 Q-loop/lid; other site 930169005861 ABC transporter signature motif; other site 930169005862 Walker B; other site 930169005863 D-loop; other site 930169005864 H-loop/switch region; other site 930169005865 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169005866 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169005867 Walker A/P-loop; other site 930169005868 ATP binding site [chemical binding]; other site 930169005869 Q-loop/lid; other site 930169005870 ABC transporter signature motif; other site 930169005871 Walker B; other site 930169005872 D-loop; other site 930169005873 H-loop/switch region; other site 930169005874 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169005875 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 930169005876 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169005877 TM-ABC transporter signature motif; other site 930169005878 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169005879 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 930169005880 TM-ABC transporter signature motif; other site 930169005881 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 930169005882 classical (c) SDRs; Region: SDR_c; cd05233 930169005883 NAD(P) binding site [chemical binding]; other site 930169005884 active site 930169005885 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 930169005886 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 930169005887 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 930169005888 Switch I; other site 930169005889 Switch II; other site 930169005890 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 930169005891 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 930169005892 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 930169005893 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 930169005894 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 930169005895 HipA N-terminal domain; Region: Couple_hipA; cl11853 930169005896 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169005897 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930169005898 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 930169005899 non-specific DNA binding site [nucleotide binding]; other site 930169005900 salt bridge; other site 930169005901 sequence-specific DNA binding site [nucleotide binding]; other site 930169005902 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 930169005903 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169005904 active site 930169005905 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 930169005906 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 930169005907 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 930169005908 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 930169005909 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 930169005910 SCP-2 sterol transfer family; Region: SCP2; pfam02036 930169005911 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 930169005912 DEAD/DEAH box helicase; Region: DEAD; pfam00270 930169005913 DEAD_2; Region: DEAD_2; pfam06733 930169005914 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 930169005915 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 930169005916 Glycoprotease family; Region: Peptidase_M22; pfam00814 930169005917 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 930169005918 active site 930169005919 Bacitracin resistance protein BacA; Region: BacA; pfam02673 930169005920 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 930169005921 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 930169005922 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 930169005923 putative acyl-acceptor binding pocket; other site 930169005924 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 930169005925 EamA-like transporter family; Region: EamA; pfam00892 930169005926 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169005927 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 930169005928 NAD(P) binding site [chemical binding]; other site 930169005929 catalytic residues [active] 930169005930 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 930169005931 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 930169005932 metal binding site [ion binding]; metal-binding site 930169005933 dimer interface [polypeptide binding]; other site 930169005934 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 930169005935 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; cl03075 930169005936 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 930169005937 putative trimer interface [polypeptide binding]; other site 930169005938 putative CoA binding site [chemical binding]; other site 930169005939 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 930169005940 ArsC family; Region: ArsC; pfam03960 930169005941 putative catalytic residues [active] 930169005942 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 930169005943 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 930169005944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169005945 homodimer interface [polypeptide binding]; other site 930169005946 catalytic residue [active] 930169005947 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 930169005948 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 930169005949 metal binding triad; other site 930169005950 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 930169005951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930169005952 Zn2+ binding site [ion binding]; other site 930169005953 Mg2+ binding site [ion binding]; other site 930169005954 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 930169005955 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 930169005956 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 930169005957 active site 930169005958 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 930169005959 rRNA interaction site [nucleotide binding]; other site 930169005960 S8 interaction site; other site 930169005961 putative laminin-1 binding site; other site 930169005962 elongation factor Ts; Provisional; Region: tsf; PRK09377 930169005963 Elongation factor TS; Region: EF_TS; pfam00889 930169005964 Elongation factor TS; Region: EF_TS; pfam00889 930169005965 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 930169005966 putative nucleotide binding site [chemical binding]; other site 930169005967 uridine monophosphate binding site [chemical binding]; other site 930169005968 homohexameric interface [polypeptide binding]; other site 930169005969 ribosome recycling factor; Reviewed; Region: frr; PRK00083 930169005970 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 930169005971 hinge region; other site 930169005972 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 930169005973 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 930169005974 catalytic residue [active] 930169005975 putative FPP diphosphate binding site; other site 930169005976 putative FPP binding hydrophobic cleft; other site 930169005977 dimer interface [polypeptide binding]; other site 930169005978 putative IPP diphosphate binding site; other site 930169005979 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 930169005980 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 930169005981 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 930169005982 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 930169005983 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 930169005984 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 930169005985 zinc metallopeptidase RseP; Provisional; Region: PRK10779 930169005986 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 930169005987 active site 930169005988 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 930169005989 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 930169005990 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 930169005991 putative substrate binding region [chemical binding]; other site 930169005992 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 930169005993 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930169005994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930169005995 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930169005996 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930169005997 Surface antigen; Region: Bac_surface_Ag; pfam01103 930169005998 periplasmic chaperone; Provisional; Region: PRK10780 930169005999 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 930169006000 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 930169006001 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 930169006002 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 930169006003 trimer interface [polypeptide binding]; other site 930169006004 active site 930169006005 UDP-GlcNAc binding site [chemical binding]; other site 930169006006 lipid binding site [chemical binding]; lipid-binding site 930169006007 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 930169006008 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 930169006009 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 930169006010 active site 930169006011 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 930169006012 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 930169006013 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 930169006014 RNA/DNA hybrid binding site [nucleotide binding]; other site 930169006015 active site 930169006016 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 930169006017 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 930169006018 putative active site [active] 930169006019 putative PHP Thumb interface [polypeptide binding]; other site 930169006020 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 930169006021 generic binding surface II; other site 930169006022 generic binding surface I; other site 930169006023 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 930169006024 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 930169006025 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 930169006026 TilS substrate binding domain; Region: TilS; pfam09179 930169006027 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 930169006028 CTP synthetase; Validated; Region: pyrG; PRK05380 930169006029 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 930169006030 Catalytic site [active] 930169006031 active site 930169006032 UTP binding site [chemical binding]; other site 930169006033 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 930169006034 active site 930169006035 putative oxyanion hole; other site 930169006036 catalytic triad [active] 930169006037 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930169006038 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 930169006039 enolase; Provisional; Region: eno; PRK00077 930169006040 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 930169006041 dimer interface [polypeptide binding]; other site 930169006042 metal binding site [ion binding]; metal-binding site 930169006043 substrate binding pocket [chemical binding]; other site 930169006044 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 930169006045 Septum formation initiator; Region: DivIC; cl17659 930169006046 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 930169006047 substrate binding site; other site 930169006048 dimer interface; other site 930169006049 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 930169006050 homotrimer interaction site [polypeptide binding]; other site 930169006051 zinc binding site [ion binding]; other site 930169006052 CDP-binding sites; other site 930169006053 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 930169006054 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 930169006055 Permutation of conserved domain; other site 930169006056 active site 930169006057 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 930169006058 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 930169006059 Methyltransferase domain; Region: Methyltransf_18; pfam12847 930169006060 S-adenosylmethionine binding site [chemical binding]; other site 930169006061 Domain of unknown function (DUF368); Region: DUF368; pfam04018 930169006062 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169006063 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169006064 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 930169006065 Cation efflux family; Region: Cation_efflux; cl00316 930169006066 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 930169006067 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 930169006068 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 930169006069 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 930169006070 putative hydrophobic ligand binding site [chemical binding]; other site 930169006071 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169006072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169006073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169006074 Fructosamine kinase; Region: Fructosamin_kin; cl17579 930169006075 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 930169006076 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 930169006077 ligand binding site [chemical binding]; other site 930169006078 NAD binding site [chemical binding]; other site 930169006079 catalytic site [active] 930169006080 homodimer interface [polypeptide binding]; other site 930169006081 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 930169006082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169006083 short chain dehydrogenase; Provisional; Region: PRK06181 930169006084 NAD(P) binding site [chemical binding]; other site 930169006085 active site 930169006086 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 930169006087 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 930169006088 Ligand Binding Site [chemical binding]; other site 930169006089 malate synthase G; Provisional; Region: PRK02999 930169006090 active site 930169006091 LysR family transcriptional regulator; Provisional; Region: PRK14997 930169006092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169006093 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 930169006094 putative effector binding pocket; other site 930169006095 dimerization interface [polypeptide binding]; other site 930169006096 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169006097 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 930169006098 putative substrate translocation pore; other site 930169006099 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 930169006100 active site 930169006101 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169006102 catalytic tetrad [active] 930169006103 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 930169006104 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 930169006105 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169006106 active site 930169006107 catalytic tetrad [active] 930169006108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 930169006109 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 930169006110 S-adenosylmethionine binding site [chemical binding]; other site 930169006111 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 930169006112 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169006113 putative substrate translocation pore; other site 930169006114 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 930169006115 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 930169006116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169006117 catalytic residue [active] 930169006118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169006119 Cupin superfamily protein; Region: Cupin_4; pfam08007 930169006120 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169006121 adenylosuccinate lyase; Provisional; Region: PRK09285 930169006122 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 930169006123 tetramer interface [polypeptide binding]; other site 930169006124 active site 930169006125 Protein of unknown function (DUF489); Region: DUF489; pfam04356 930169006126 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 930169006127 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 930169006128 Ligand Binding Site [chemical binding]; other site 930169006129 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 930169006130 nudix motif; other site 930169006131 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 930169006132 pseudouridine synthase; Region: TIGR00093 930169006133 active site 930169006134 isocitrate dehydrogenase; Validated; Region: PRK07362 930169006135 isocitrate dehydrogenase; Reviewed; Region: PRK07006 930169006136 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 930169006137 DNA-binding site [nucleotide binding]; DNA binding site 930169006138 RNA-binding motif; other site 930169006139 Uncharacterized conserved protein [Function unknown]; Region: COG2127 930169006140 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 930169006141 Clp amino terminal domain; Region: Clp_N; pfam02861 930169006142 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 930169006143 Walker A motif; other site 930169006144 ATP binding site [chemical binding]; other site 930169006145 Walker B motif; other site 930169006146 arginine finger; other site 930169006147 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 930169006148 Walker A motif; other site 930169006149 ATP binding site [chemical binding]; other site 930169006150 Walker B motif; other site 930169006151 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930169006152 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 930169006153 rRNA binding site [nucleotide binding]; other site 930169006154 predicted 30S ribosome binding site; other site 930169006155 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 930169006156 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 930169006157 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 930169006158 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 930169006159 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 930169006160 acyl-activating enzyme (AAE) consensus motif; other site 930169006161 putative AMP binding site [chemical binding]; other site 930169006162 putative active site [active] 930169006163 putative CoA binding site [chemical binding]; other site 930169006164 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169006165 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 930169006166 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 930169006167 N-terminal plug; other site 930169006168 ligand-binding site [chemical binding]; other site 930169006169 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169006170 FecR protein; Region: FecR; pfam04773 930169006171 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169006172 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169006173 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 930169006174 DNA binding residues [nucleotide binding] 930169006175 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 930169006176 thioredoxin reductase; Provisional; Region: PRK10262 930169006177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169006178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169006179 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 930169006180 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 930169006181 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 930169006182 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 930169006183 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 930169006184 recombination factor protein RarA; Reviewed; Region: PRK13342 930169006185 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 930169006186 Walker A motif; other site 930169006187 ATP binding site [chemical binding]; other site 930169006188 Walker B motif; other site 930169006189 arginine finger; other site 930169006190 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 930169006191 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 930169006192 seryl-tRNA synthetase; Provisional; Region: PRK05431 930169006193 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 930169006194 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 930169006195 dimer interface [polypeptide binding]; other site 930169006196 active site 930169006197 motif 1; other site 930169006198 motif 2; other site 930169006199 motif 3; other site 930169006200 siroheme synthase; Provisional; Region: cysG; PRK10637 930169006201 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 930169006202 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 930169006203 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 930169006204 active site 930169006205 SAM binding site [chemical binding]; other site 930169006206 homodimer interface [polypeptide binding]; other site 930169006207 hypothetical protein; Validated; Region: PRK09071 930169006208 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 930169006209 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 930169006210 DsrE/DsrF-like family; Region: DrsE; cl00672 930169006211 YccA-like proteins; Region: YccA_like; cd10433 930169006212 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 930169006213 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006214 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006215 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006216 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006217 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006218 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006219 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169006220 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 930169006221 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 930169006222 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930169006223 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169006224 Walker A/P-loop; other site 930169006225 ATP binding site [chemical binding]; other site 930169006226 Q-loop/lid; other site 930169006227 ABC transporter signature motif; other site 930169006228 Walker B; other site 930169006229 D-loop; other site 930169006230 H-loop/switch region; other site 930169006231 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 930169006232 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169006233 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169006234 Uncharacterized conserved protein [Function unknown]; Region: COG1359 930169006235 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 930169006236 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 930169006237 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 930169006238 salt bridge; other site 930169006239 non-specific DNA binding site [nucleotide binding]; other site 930169006240 sequence-specific DNA binding site [nucleotide binding]; other site 930169006241 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006242 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006243 active site 930169006244 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169006245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169006246 NAD(P) binding site [chemical binding]; other site 930169006247 active site 930169006248 Phosphotransferase enzyme family; Region: APH; pfam01636 930169006249 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 930169006250 putative active site [active] 930169006251 putative substrate binding site [chemical binding]; other site 930169006252 ATP binding site [chemical binding]; other site 930169006253 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 930169006254 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169006255 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169006256 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 930169006257 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006258 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006259 active site 930169006260 Uncharacterized conserved protein [Function unknown]; Region: COG3777 930169006261 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 930169006262 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 930169006263 active site 2 [active] 930169006264 active site 1 [active] 930169006265 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169006266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169006267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169006268 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006269 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006270 active site 930169006271 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 930169006272 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 930169006273 acyl-activating enzyme (AAE) consensus motif; other site 930169006274 putative AMP binding site [chemical binding]; other site 930169006275 putative active site [active] 930169006276 putative CoA binding site [chemical binding]; other site 930169006277 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 930169006278 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 930169006279 DUF35 OB-fold domain; Region: DUF35; pfam01796 930169006280 thiolase; Provisional; Region: PRK06158 930169006281 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 930169006282 active site 930169006283 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006284 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006285 active site 930169006286 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169006287 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006288 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169006289 acyl-activating enzyme (AAE) consensus motif; other site 930169006290 acyl-activating enzyme (AAE) consensus motif; other site 930169006291 putative AMP binding site [chemical binding]; other site 930169006292 putative active site [active] 930169006293 putative CoA binding site [chemical binding]; other site 930169006294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169006295 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169006296 DNA-binding site [nucleotide binding]; DNA binding site 930169006297 FCD domain; Region: FCD; pfam07729 930169006298 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 930169006299 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169006300 CoenzymeA binding site [chemical binding]; other site 930169006301 subunit interaction site [polypeptide binding]; other site 930169006302 PHB binding site; other site 930169006303 LysE type translocator; Region: LysE; cl00565 930169006304 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 930169006305 DTAP/Switch II; other site 930169006306 Switch I; other site 930169006307 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 930169006308 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 930169006309 Carbon starvation protein CstA; Region: CstA; pfam02554 930169006310 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 930169006311 response regulator; Provisional; Region: PRK09483 930169006312 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 930169006313 active site 930169006314 phosphorylation site [posttranslational modification] 930169006315 intermolecular recognition site; other site 930169006316 dimerization interface [polypeptide binding]; other site 930169006317 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 930169006318 DNA binding residues [nucleotide binding] 930169006319 dimerization interface [polypeptide binding]; other site 930169006320 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 930169006321 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 930169006322 GIY-YIG motif/motif A; other site 930169006323 active site 930169006324 catalytic site [active] 930169006325 putative DNA binding site [nucleotide binding]; other site 930169006326 metal binding site [ion binding]; metal-binding site 930169006327 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 930169006328 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 930169006329 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 930169006330 active site 930169006331 catalytic residues [active] 930169006332 DNA binding site [nucleotide binding] 930169006333 Int/Topo IB signature motif; other site 930169006334 Putative helicase; Region: TraI_2; pfam07514 930169006335 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 930169006336 Zn2+ binding site [ion binding]; other site 930169006337 Mg2+ binding site [ion binding]; other site 930169006338 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 930169006339 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 930169006340 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169006341 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169006342 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 930169006343 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 930169006344 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169006345 CoenzymeA binding site [chemical binding]; other site 930169006346 subunit interaction site [polypeptide binding]; other site 930169006347 PHB binding site; other site 930169006348 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169006349 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006350 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169006351 acyl-activating enzyme (AAE) consensus motif; other site 930169006352 acyl-activating enzyme (AAE) consensus motif; other site 930169006353 putative AMP binding site [chemical binding]; other site 930169006354 putative active site [active] 930169006355 putative CoA binding site [chemical binding]; other site 930169006356 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169006357 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006358 active site 930169006359 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169006360 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169006361 active site 930169006362 choline dehydrogenase; Validated; Region: PRK02106 930169006363 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169006364 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169006365 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169006366 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169006367 classical (c) SDRs; Region: SDR_c; cd05233 930169006368 short chain dehydrogenase; Provisional; Region: PRK05650 930169006369 NAD(P) binding site [chemical binding]; other site 930169006370 active site 930169006371 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169006372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169006373 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 930169006374 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169006375 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169006376 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169006377 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169006378 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 930169006379 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 930169006380 dimer interface [polypeptide binding]; other site 930169006381 acyl-activating enzyme (AAE) consensus motif; other site 930169006382 putative active site [active] 930169006383 AMP binding site [chemical binding]; other site 930169006384 putative CoA binding site [chemical binding]; other site 930169006385 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 930169006386 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 930169006387 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 930169006388 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169006389 acyl-activating enzyme (AAE) consensus motif; other site 930169006390 active site 930169006391 AMP binding site [chemical binding]; other site 930169006392 substrate binding site [chemical binding]; other site 930169006393 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006394 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 930169006395 acyl-activating enzyme (AAE) consensus motif; other site 930169006396 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006397 AMP binding site [chemical binding]; other site 930169006398 active site 930169006399 acyl-activating enzyme (AAE) consensus motif; other site 930169006400 CoA binding site [chemical binding]; other site 930169006401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006402 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169006403 active site 930169006404 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930169006405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169006406 NAD(P) binding site [chemical binding]; other site 930169006407 active site 930169006408 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 930169006409 active site 930169006410 catalytic site [active] 930169006411 (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 930169006412 active site 930169006413 catalytic site [active] 930169006414 lipid-transfer protein; Provisional; Region: PRK08256 930169006415 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 930169006416 active site 930169006417 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 930169006418 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169006419 catalytic site [active] 930169006420 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169006421 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 930169006422 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169006423 active site 930169006424 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 930169006425 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 930169006426 active site 930169006427 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169006428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169006429 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 930169006430 classical (c) SDRs; Region: SDR_c; cd05233 930169006431 short chain dehydrogenase; Provisional; Region: PRK05650 930169006432 NAD(P) binding site [chemical binding]; other site 930169006433 active site 930169006434 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169006435 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169006436 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169006437 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169006438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169006439 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930169006440 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 930169006441 catalytic loop [active] 930169006442 iron binding site [ion binding]; other site 930169006443 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 930169006444 Cytochrome P450; Region: p450; cl12078 930169006445 choline dehydrogenase; Validated; Region: PRK02106 930169006446 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169006447 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 930169006448 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169006449 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169006450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169006451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169006452 Integrase core domain; Region: rve; pfam00665 930169006453 Integrase core domain; Region: rve; pfam00665 930169006454 Integrase core domain; Region: rve_2; pfam13333 930169006455 Helix-turn-helix domain; Region: HTH_28; pfam13518 930169006456 Winged helix-turn helix; Region: HTH_29; pfam13551 930169006457 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930169006458 MPN+ (JAMM) motif; other site 930169006459 Zinc-binding site [ion binding]; other site 930169006460 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 930169006461 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 930169006462 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 930169006463 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 930169006464 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 930169006465 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 930169006466 RHS Repeat; Region: RHS_repeat; pfam05593 930169006467 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930169006468 RHS Repeat; Region: RHS_repeat; pfam05593 930169006469 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930169006470 RHS Repeat; Region: RHS_repeat; pfam05593 930169006471 RHS Repeat; Region: RHS_repeat; pfam05593 930169006472 RHS Repeat; Region: RHS_repeat; pfam05593 930169006473 RHS Repeat; Region: RHS_repeat; pfam05593 930169006474 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 930169006475 RHS Repeat; Region: RHS_repeat; pfam05593 930169006476 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930169006477 DEAD-like helicases superfamily; Region: DEXDc; smart00487 930169006478 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 930169006479 ATP binding site [chemical binding]; other site 930169006480 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 930169006481 nucleotide binding region [chemical binding]; other site 930169006482 ATP-binding site [chemical binding]; other site 930169006483 Methyltransferase domain; Region: Methyltransf_26; pfam13659 930169006484 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 930169006485 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930169006486 MPN+ (JAMM) motif; other site 930169006487 Zinc-binding site [ion binding]; other site 930169006488 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 930169006489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 930169006490 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930169006491 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930169006492 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 930169006493 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 930169006494 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 930169006495 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 930169006496 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 930169006497 active site 930169006498 metal binding site [ion binding]; metal-binding site 930169006499 Part of AAA domain; Region: AAA_19; pfam13245 930169006500 Family description; Region: UvrD_C_2; pfam13538 930169006501 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 930169006502 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 930169006503 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 930169006504 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 930169006505 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 930169006506 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 930169006507 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 930169006508 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 930169006509 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 930169006510 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 930169006511 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 930169006512 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 930169006513 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 930169006514 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 930169006515 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 930169006516 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 930169006517 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 930169006518 Bacterial PH domain; Region: DUF304; pfam03703 930169006519 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 930169006520 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 930169006521 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 930169006522 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 930169006523 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 930169006524 DNA topoisomerase III; Provisional; Region: PRK07726 930169006525 active site 930169006526 putative interdomain interaction site [polypeptide binding]; other site 930169006527 putative metal-binding site [ion binding]; other site 930169006528 putative nucleotide binding site [chemical binding]; other site 930169006529 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 930169006530 domain I; other site 930169006531 DNA binding groove [nucleotide binding] 930169006532 phosphate binding site [ion binding]; other site 930169006533 domain II; other site 930169006534 domain III; other site 930169006535 nucleotide binding site [chemical binding]; other site 930169006536 catalytic site [active] 930169006537 domain IV; other site 930169006538 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 930169006539 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 930169006540 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 930169006541 dimer interface [polypeptide binding]; other site 930169006542 ssDNA binding site [nucleotide binding]; other site 930169006543 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930169006544 Domain of unknown function (DUF1845); Region: DUF1845; pfam08900 930169006545 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 930169006546 putative active site [active] 930169006547 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 930169006548 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 930169006549 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 930169006550 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 930169006551 ParB-like nuclease domain; Region: ParBc; pfam02195 930169006552 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 930169006553 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 930169006554 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 930169006555 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 930169006556 trimer interface [polypeptide binding]; other site 930169006557 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 930169006558 trimer interface [polypeptide binding]; other site 930169006559 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 930169006560 trimer interface [polypeptide binding]; other site 930169006561 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 930169006562 trimer interface [polypeptide binding]; other site 930169006563 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 930169006564 trimer interface [polypeptide binding]; other site 930169006565 Haemagglutinin; Region: HIM; pfam05662 930169006566 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 930169006567 trimer interface [polypeptide binding]; other site 930169006568 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 930169006569 trimer interface [polypeptide binding]; other site 930169006570 Haemagglutinin; Region: HIM; pfam05662 930169006571 Haemagglutinin; Region: HIM; pfam05662 930169006572 Xylella fastidiosa surface protein related; Region: X_fast-SP_rel; pfam06669 930169006573 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 930169006574 trimer interface [polypeptide binding]; other site 930169006575 Xylella fastidiosa surface protein related; Region: X_fast-SP_rel; pfam06669 930169006576 Xylella fastidiosa surface protein related; Region: X_fast-SP_rel; pfam06669 930169006577 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 930169006578 trimer interface [polypeptide binding]; other site 930169006579 YadA-like C-terminal region; Region: YadA; pfam03895 930169006580 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 930169006581 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 930169006582 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169006583 ligand binding site [chemical binding]; other site 930169006584 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 930169006585 Sel1-like repeats; Region: SEL1; smart00671 930169006586 Sel1-like repeats; Region: SEL1; smart00671 930169006587 Sel1-like repeats; Region: SEL1; smart00671 930169006588 Bacterial SH3 domain; Region: SH3_3; pfam08239 930169006589 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 930169006590 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 930169006591 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169006592 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169006593 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 930169006594 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 930169006595 non-specific DNA binding site [nucleotide binding]; other site 930169006596 salt bridge; other site 930169006597 sequence-specific DNA binding site [nucleotide binding]; other site 930169006598 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 930169006599 ADP binding site [chemical binding]; other site 930169006600 magnesium binding site [ion binding]; other site 930169006601 putative shikimate binding site; other site 930169006602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169006603 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169006604 Walker A/P-loop; other site 930169006605 ATP binding site [chemical binding]; other site 930169006606 Q-loop/lid; other site 930169006607 ABC transporter signature motif; other site 930169006608 Walker B; other site 930169006609 D-loop; other site 930169006610 H-loop/switch region; other site 930169006611 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169006612 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169006613 Walker A/P-loop; other site 930169006614 ATP binding site [chemical binding]; other site 930169006615 Q-loop/lid; other site 930169006616 ABC transporter signature motif; other site 930169006617 Walker B; other site 930169006618 D-loop; other site 930169006619 H-loop/switch region; other site 930169006620 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169006621 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 930169006622 TM-ABC transporter signature motif; other site 930169006623 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 930169006624 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169006625 TM-ABC transporter signature motif; other site 930169006626 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169006627 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 930169006628 putative ligand binding site [chemical binding]; other site 930169006629 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 930169006630 4Fe-4S binding domain; Region: Fer4; pfam00037 930169006631 4Fe-4S binding domain; Region: Fer4_6; pfam12837 930169006632 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 930169006633 dimerization interface [polypeptide binding]; other site 930169006634 FAD binding pocket [chemical binding]; other site 930169006635 FAD binding motif [chemical binding]; other site 930169006636 catalytic residues [active] 930169006637 NAD binding pocket [chemical binding]; other site 930169006638 phosphate binding motif [ion binding]; other site 930169006639 beta-alpha-beta structure motif; other site 930169006640 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 930169006641 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 930169006642 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 930169006643 substrate binding site [chemical binding]; other site 930169006644 oxyanion hole (OAH) forming residues; other site 930169006645 trimer interface [polypeptide binding]; other site 930169006646 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 930169006647 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006648 acyl-activating enzyme (AAE) consensus motif; other site 930169006649 AMP binding site [chemical binding]; other site 930169006650 active site 930169006651 CoA binding site [chemical binding]; other site 930169006652 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 930169006653 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169006654 NAD(P) binding site [chemical binding]; other site 930169006655 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169006656 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 930169006657 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169006658 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 930169006659 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 930169006660 carboxyltransferase (CT) interaction site; other site 930169006661 biotinylation site [posttranslational modification]; other site 930169006662 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 930169006663 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169006664 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006665 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 930169006666 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006667 acyl-activating enzyme (AAE) consensus motif; other site 930169006668 acyl-activating enzyme (AAE) consensus motif; other site 930169006669 AMP binding site [chemical binding]; other site 930169006670 active site 930169006671 CoA binding site [chemical binding]; other site 930169006672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169006673 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169006674 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169006675 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169006676 acyl-activating enzyme (AAE) consensus motif; other site 930169006677 acyl-activating enzyme (AAE) consensus motif; other site 930169006678 putative AMP binding site [chemical binding]; other site 930169006679 putative active site [active] 930169006680 putative CoA binding site [chemical binding]; other site 930169006681 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 930169006682 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 930169006683 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 930169006684 Amidase; Region: Amidase; pfam01425 930169006685 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 930169006686 putative substrate translocation pore; other site 930169006687 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169006688 Pirin; Region: Pirin; pfam02678 930169006689 Pirin-related protein [General function prediction only]; Region: COG1741 930169006690 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 930169006691 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 930169006692 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 930169006693 PAAR motif; Region: PAAR_motif; pfam05488 930169006694 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 930169006695 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 930169006696 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 930169006697 G1 box; other site 930169006698 GTP/Mg2+ binding site [chemical binding]; other site 930169006699 G2 box; other site 930169006700 G3 box; other site 930169006701 Switch II region; other site 930169006702 G4 box; other site 930169006703 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 930169006704 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 930169006705 type VI secretion-associated protein, BMA_A0400 family; Region: VI_minor_4; TIGR03373 930169006706 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930169006707 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169006708 ligand binding site [chemical binding]; other site 930169006709 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 930169006710 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 930169006711 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 930169006712 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 930169006713 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 930169006714 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 930169006715 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 930169006716 binding surface 930169006717 TPR motif; other site 930169006718 Protein of unknown function (DUF770); Region: DUF770; pfam05591 930169006719 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 930169006720 Protein of unknown function (DUF877); Region: DUF877; pfam05943 930169006721 Protein of unknown function (DUF796); Region: DUF796; pfam05638 930169006722 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 930169006723 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 930169006724 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 930169006725 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 930169006726 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 930169006727 Clp amino terminal domain; Region: Clp_N; pfam02861 930169006728 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 930169006729 Walker A motif; other site 930169006730 ATP binding site [chemical binding]; other site 930169006731 Walker B motif; other site 930169006732 arginine finger; other site 930169006733 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 930169006734 Walker A motif; other site 930169006735 ATP binding site [chemical binding]; other site 930169006736 Walker B motif; other site 930169006737 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 930169006738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 930169006739 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930169006740 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930169006741 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 930169006742 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 930169006743 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 930169006744 dimerization interface [polypeptide binding]; other site 930169006745 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 930169006746 GAF domain; Region: GAF; pfam01590 930169006747 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 930169006748 dimer interface [polypeptide binding]; other site 930169006749 phosphorylation site [posttranslational modification] 930169006750 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 930169006751 ATP binding site [chemical binding]; other site 930169006752 Mg2+ binding site [ion binding]; other site 930169006753 G-X-G motif; other site 930169006754 Response regulator receiver domain; Region: Response_reg; pfam00072 930169006755 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 930169006756 active site 930169006757 phosphorylation site [posttranslational modification] 930169006758 intermolecular recognition site; other site 930169006759 dimerization interface [polypeptide binding]; other site 930169006760 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169006761 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 930169006762 active site 930169006763 phosphorylation site [posttranslational modification] 930169006764 intermolecular recognition site; other site 930169006765 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 930169006766 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 930169006767 active site 930169006768 phosphorylation site [posttranslational modification] 930169006769 intermolecular recognition site; other site 930169006770 dimerization interface [polypeptide binding]; other site 930169006771 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 930169006772 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 930169006773 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 930169006774 Response regulator receiver domain; Region: Response_reg; pfam00072 930169006775 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 930169006776 active site 930169006777 phosphorylation site [posttranslational modification] 930169006778 intermolecular recognition site; other site 930169006779 dimerization interface [polypeptide binding]; other site 930169006780 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 930169006781 CheB methylesterase; Region: CheB_methylest; pfam01339 930169006782 Response regulator receiver domain; Region: Response_reg; pfam00072 930169006783 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 930169006784 active site 930169006785 phosphorylation site [posttranslational modification] 930169006786 intermolecular recognition site; other site 930169006787 dimerization interface [polypeptide binding]; other site 930169006788 PAS fold; Region: PAS; pfam00989 930169006789 PilZ domain; Region: PilZ; pfam07238 930169006790 type II secretion system protein E; Region: type_II_gspE; TIGR02533 930169006791 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 930169006792 Walker A motif; other site 930169006793 ATP binding site [chemical binding]; other site 930169006794 Walker B motif; other site 930169006795 type II secretion system protein F; Region: GspF; TIGR02120 930169006796 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930169006797 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930169006798 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 930169006799 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 930169006800 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 930169006801 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 930169006802 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 930169006803 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 930169006804 type II secretion system protein J; Region: gspJ; TIGR01711 930169006805 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 930169006806 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 930169006807 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 930169006808 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 930169006809 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 930169006810 GspL periplasmic domain; Region: GspL_C; cl14909 930169006811 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 930169006812 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 930169006813 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930169006814 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 930169006815 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 930169006816 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 930169006817 substrate binding pocket [chemical binding]; other site 930169006818 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 930169006819 B12 binding site [chemical binding]; other site 930169006820 cobalt ligand [ion binding]; other site 930169006821 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 930169006822 Protein of unknown function, DUF481; Region: DUF481; pfam04338 930169006823 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 930169006824 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 930169006825 S-adenosylmethionine binding site [chemical binding]; other site 930169006826 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 930169006827 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 930169006828 motif II; other site 930169006829 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 930169006830 Cupin domain; Region: Cupin_2; pfam07883 930169006831 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 930169006832 intersubunit interface [polypeptide binding]; other site 930169006833 active site 930169006834 Zn2+ binding site [ion binding]; other site 930169006835 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 930169006836 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 930169006837 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 930169006838 Peptidase S46; Region: Peptidase_S46; pfam10459 930169006839 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 930169006840 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 930169006841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169006842 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 930169006843 substrate binding site [chemical binding]; other site 930169006844 dimerization interface [polypeptide binding]; other site 930169006845 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 930169006846 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 930169006847 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 930169006848 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 930169006849 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 930169006850 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 930169006851 putative NADH binding site [chemical binding]; other site 930169006852 putative active site [active] 930169006853 nudix motif; other site 930169006854 putative metal binding site [ion binding]; other site 930169006855 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 930169006856 putative inner membrane peptidase; Provisional; Region: PRK11778 930169006857 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 930169006858 tandem repeat interface [polypeptide binding]; other site 930169006859 oligomer interface [polypeptide binding]; other site 930169006860 active site residues [active] 930169006861 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 930169006862 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 930169006863 NADP binding site [chemical binding]; other site 930169006864 dimer interface [polypeptide binding]; other site 930169006865 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 930169006866 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 930169006867 Cl binding site [ion binding]; other site 930169006868 oligomer interface [polypeptide binding]; other site 930169006869 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 930169006870 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 930169006871 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930169006872 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930169006873 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 930169006874 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 930169006875 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 930169006876 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 930169006877 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 930169006878 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 930169006879 Peptidase family M48; Region: Peptidase_M48; pfam01435 930169006880 ABC1 family; Region: ABC1; cl17513 930169006881 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 930169006882 haloalkane dehalogenase; Provisional; Region: PRK03592 930169006883 SET domain; Region: SET; pfam00856 930169006884 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 930169006885 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930169006886 active site 930169006887 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 930169006888 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 930169006889 Walker A motif; other site 930169006890 ATP binding site [chemical binding]; other site 930169006891 Walker B motif; other site 930169006892 arginine finger; other site 930169006893 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 930169006894 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 930169006895 S-adenosylmethionine binding site [chemical binding]; other site 930169006896 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169006897 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169006898 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930169006899 EamA-like transporter family; Region: EamA; pfam00892 930169006900 EamA-like transporter family; Region: EamA; pfam00892 930169006901 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 930169006902 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 930169006903 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 930169006904 FeS/SAM binding site; other site 930169006905 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 930169006906 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 930169006907 RNA polymerase sigma factor; Provisional; Region: PRK12511 930169006908 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169006909 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 930169006910 DNA binding residues [nucleotide binding] 930169006911 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 930169006912 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 930169006913 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 930169006914 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 930169006915 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 930169006916 ligand binding site [chemical binding]; other site 930169006917 homodimer interface [polypeptide binding]; other site 930169006918 NAD(P) binding site [chemical binding]; other site 930169006919 trimer interface B [polypeptide binding]; other site 930169006920 trimer interface A [polypeptide binding]; other site 930169006921 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 930169006922 ABC1 family; Region: ABC1; cl17513 930169006923 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169006924 carboxy-terminal protease; Provisional; Region: PRK11186 930169006925 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 930169006926 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 930169006927 protein binding site [polypeptide binding]; other site 930169006928 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 930169006929 Catalytic dyad [active] 930169006930 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 930169006931 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 930169006932 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 930169006933 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 930169006934 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 930169006935 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 930169006936 Cl binding site [ion binding]; other site 930169006937 oligomer interface [polypeptide binding]; other site 930169006938 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169006939 hypothetical protein; Validated; Region: PRK02101 930169006940 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 930169006941 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 930169006942 Ligand Binding Site [chemical binding]; other site 930169006943 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 930169006944 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 930169006945 ligand binding site [chemical binding]; other site 930169006946 flexible hinge region; other site 930169006947 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 930169006948 non-specific DNA interactions [nucleotide binding]; other site 930169006949 DNA binding site [nucleotide binding] 930169006950 sequence specific DNA binding site [nucleotide binding]; other site 930169006951 putative cAMP binding site [chemical binding]; other site 930169006952 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 930169006953 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 930169006954 FeS/SAM binding site; other site 930169006955 HemN C-terminal domain; Region: HemN_C; pfam06969 930169006956 Family description; Region: DsbD_2; pfam13386 930169006957 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 930169006958 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 930169006959 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 930169006960 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 930169006961 metal-binding site [ion binding] 930169006962 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930169006963 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 930169006964 motif II; other site 930169006965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 930169006966 FixH; Region: FixH; pfam05751 930169006967 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 930169006968 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 930169006969 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 930169006970 Cytochrome c; Region: Cytochrom_C; pfam00034 930169006971 Cytochrome c; Region: Cytochrom_C; pfam00034 930169006972 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 930169006973 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 930169006974 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 930169006975 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 930169006976 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 930169006977 Putative water exit pathway; other site 930169006978 Binuclear center (active site) [active] 930169006979 Putative proton exit pathway; other site 930169006980 Low-spin heme binding site [chemical binding]; other site 930169006981 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 930169006982 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 930169006983 N-terminal plug; other site 930169006984 ligand-binding site [chemical binding]; other site 930169006985 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169006986 Protein export membrane protein; Region: SecD_SecF; cl14618 930169006987 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169006988 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169006989 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169006990 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169006991 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 930169006992 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 930169006993 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 930169006994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 930169006995 Isochorismatase family; Region: Isochorismatase; pfam00857 930169006996 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 930169006997 catalytic triad [active] 930169006998 substrate binding site [chemical binding]; other site 930169006999 domain interfaces; other site 930169007000 conserved cis-peptide bond; other site 930169007001 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 930169007002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169007003 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 930169007004 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169007005 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169007006 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 930169007007 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169007008 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 930169007009 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169007010 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 930169007011 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 930169007012 catalytic loop [active] 930169007013 iron binding site [ion binding]; other site 930169007014 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 930169007015 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 930169007016 Cytochrome c; Region: Cytochrom_C; pfam00034 930169007017 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 930169007018 Cytochrome c; Region: Cytochrom_C; pfam00034 930169007019 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 930169007020 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 930169007021 Na binding site [ion binding]; other site 930169007022 Tannase and feruloyl esterase; Region: Tannase; pfam07519 930169007023 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169007024 Tannase and feruloyl esterase; Region: Tannase; pfam07519 930169007025 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 930169007026 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 930169007027 potential catalytic triad [active] 930169007028 conserved cys residue [active] 930169007029 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 930169007030 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 930169007031 putative catalytic residue [active] 930169007032 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169007033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007034 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 930169007035 dimerization interface [polypeptide binding]; other site 930169007036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169007037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007038 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 930169007039 putative effector binding pocket; other site 930169007040 dimerization interface [polypeptide binding]; other site 930169007041 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 930169007042 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 930169007043 putative substrate translocation pore; other site 930169007044 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169007045 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 930169007046 putative active site [active] 930169007047 putative metal binding site [ion binding]; other site 930169007048 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 930169007049 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 930169007050 dimer interface [polypeptide binding]; other site 930169007051 active site residues [active] 930169007052 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 930169007053 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 930169007054 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 930169007055 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 930169007056 EamA-like transporter family; Region: EamA; pfam00892 930169007057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 930169007058 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 930169007059 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 930169007060 Walker A motif; other site 930169007061 ATP binding site [chemical binding]; other site 930169007062 Walker B motif; other site 930169007063 arginine finger; other site 930169007064 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 930169007065 RNA methyltransferase, RsmE family; Region: TIGR00046 930169007066 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 930169007067 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 930169007068 RNA binding surface [nucleotide binding]; other site 930169007069 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 930169007070 probable active site [active] 930169007071 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 930169007072 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 930169007073 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 930169007074 active site 930169007075 HIGH motif; other site 930169007076 dimer interface [polypeptide binding]; other site 930169007077 KMSKS motif; other site 930169007078 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930169007079 active site 930169007080 KMSKS motif; other site 930169007081 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 930169007082 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 930169007083 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 930169007084 active site 930169007085 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 930169007086 Intracellular septation protein A; Region: IspA; pfam04279 930169007087 YciI-like protein; Reviewed; Region: PRK11370 930169007088 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 930169007089 Bacterial SH3 domain; Region: SH3_3; pfam08239 930169007090 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169007091 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169007092 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 930169007093 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 930169007094 putative acyl-acceptor binding pocket; other site 930169007095 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 930169007096 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 930169007097 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 930169007098 active site 930169007099 catalytic triad [active] 930169007100 oxyanion hole [active] 930169007101 switch loop; other site 930169007102 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 930169007103 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 930169007104 Walker A/P-loop; other site 930169007105 ATP binding site [chemical binding]; other site 930169007106 Q-loop/lid; other site 930169007107 ABC transporter signature motif; other site 930169007108 Walker B; other site 930169007109 D-loop; other site 930169007110 H-loop/switch region; other site 930169007111 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930169007112 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 930169007113 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 930169007114 putative substrate translocation pore; other site 930169007115 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 930169007116 TrkA-N domain; Region: TrkA_N; pfam02254 930169007117 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 930169007118 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 930169007119 DNA binding residues [nucleotide binding] 930169007120 dimer interface [polypeptide binding]; other site 930169007121 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 930169007122 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 930169007123 putative N- and C-terminal domain interface [polypeptide binding]; other site 930169007124 putative active site [active] 930169007125 MgATP binding site [chemical binding]; other site 930169007126 catalytic site [active] 930169007127 metal binding site [ion binding]; metal-binding site 930169007128 putative carbohydrate binding site [chemical binding]; other site 930169007129 FAD dependent oxidoreductase; Region: DAO; pfam01266 930169007130 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 930169007131 FAD binding domain; Region: FAD_binding_4; pfam01565 930169007132 putative outer membrane lipoprotein; Provisional; Region: PRK10510 930169007133 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169007134 ligand binding site [chemical binding]; other site 930169007135 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 930169007136 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169007137 putative substrate translocation pore; other site 930169007138 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 930169007139 dinuclear metal binding motif [ion binding]; other site 930169007140 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 930169007141 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169007142 CoenzymeA binding site [chemical binding]; other site 930169007143 subunit interaction site [polypeptide binding]; other site 930169007144 PHB binding site; other site 930169007145 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 930169007146 CoenzymeA binding site [chemical binding]; other site 930169007147 subunit interaction site [polypeptide binding]; other site 930169007148 PHB binding site; other site 930169007149 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 930169007150 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 930169007151 Uncharacterized conserved protein [Function unknown]; Region: COG3339 930169007152 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 930169007153 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 930169007154 P-loop; other site 930169007155 Magnesium ion binding site [ion binding]; other site 930169007156 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 930169007157 Magnesium ion binding site [ion binding]; other site 930169007158 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 930169007159 Cytochrome P450; Region: p450; cl12078 930169007160 glutathione reductase; Validated; Region: PRK06116 930169007161 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169007162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169007163 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930169007164 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 930169007165 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 930169007166 active site 930169007167 FMN binding site [chemical binding]; other site 930169007168 substrate binding site [chemical binding]; other site 930169007169 3Fe-4S cluster binding site [ion binding]; other site 930169007170 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 930169007171 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 930169007172 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 930169007173 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169007174 catalytic residue [active] 930169007175 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 930169007176 iron-sulfur cluster [ion binding]; other site 930169007177 [2Fe-2S] cluster binding site [ion binding]; other site 930169007178 phosphoenolpyruvate synthase; Validated; Region: PRK06464 930169007179 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 930169007180 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 930169007181 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 930169007182 PEP synthetase regulatory protein; Provisional; Region: PRK05339 930169007183 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169007184 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 930169007185 CoenzymeA binding site [chemical binding]; other site 930169007186 subunit interaction site [polypeptide binding]; other site 930169007187 PHB binding site; other site 930169007188 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 930169007189 2-methylcitrate dehydratase; Region: prpD; TIGR02330 930169007190 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 930169007191 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 930169007192 putative active site [active] 930169007193 aconitate hydratase; Validated; Region: PRK09277 930169007194 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 930169007195 substrate binding site [chemical binding]; other site 930169007196 ligand binding site [chemical binding]; other site 930169007197 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 930169007198 substrate binding site [chemical binding]; other site 930169007199 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 930169007200 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) catalyzes...; Region: Ec2MCS_like; cd06108 930169007201 dimer interface [polypeptide binding]; other site 930169007202 active site 930169007203 citrylCoA binding site [chemical binding]; other site 930169007204 oxalacetate/citrate binding site [chemical binding]; other site 930169007205 coenzyme A binding site [chemical binding]; other site 930169007206 catalytic triad [active] 930169007207 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 930169007208 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 930169007209 tetramer interface [polypeptide binding]; other site 930169007210 active site 930169007211 Mg2+/Mn2+ binding site [ion binding]; other site 930169007212 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169007213 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169007214 DNA-binding site [nucleotide binding]; DNA binding site 930169007215 FCD domain; Region: FCD; pfam07729 930169007216 aminodeoxychorismate synthase; Provisional; Region: PRK07508 930169007217 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 930169007218 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 930169007219 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 930169007220 active site 930169007221 catalytic site [active] 930169007222 substrate binding site [chemical binding]; other site 930169007223 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 930169007224 RNA/DNA hybrid binding site [nucleotide binding]; other site 930169007225 active site 930169007226 Methyltransferase domain; Region: Methyltransf_11; pfam08241 930169007227 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 930169007228 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 930169007229 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169007230 catalytic residue [active] 930169007231 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169007232 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169007233 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169007234 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 930169007235 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 930169007236 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 930169007237 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 930169007238 dimer interface [polypeptide binding]; other site 930169007239 conserved gate region; other site 930169007240 putative PBP binding loops; other site 930169007241 ABC-ATPase subunit interface; other site 930169007242 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 930169007243 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 930169007244 dimer interface [polypeptide binding]; other site 930169007245 conserved gate region; other site 930169007246 putative PBP binding loops; other site 930169007247 ABC-ATPase subunit interface; other site 930169007248 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 930169007249 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169007250 Walker A/P-loop; other site 930169007251 ATP binding site [chemical binding]; other site 930169007252 Q-loop/lid; other site 930169007253 ABC transporter signature motif; other site 930169007254 Walker B; other site 930169007255 D-loop; other site 930169007256 H-loop/switch region; other site 930169007257 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169007258 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169007259 Walker A/P-loop; other site 930169007260 ATP binding site [chemical binding]; other site 930169007261 Q-loop/lid; other site 930169007262 ABC transporter signature motif; other site 930169007263 Walker B; other site 930169007264 D-loop; other site 930169007265 H-loop/switch region; other site 930169007266 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169007267 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 930169007268 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 930169007269 NAD binding site [chemical binding]; other site 930169007270 homotetramer interface [polypeptide binding]; other site 930169007271 homodimer interface [polypeptide binding]; other site 930169007272 substrate binding site [chemical binding]; other site 930169007273 active site 930169007274 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 930169007275 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 930169007276 active site 930169007277 metal binding site [ion binding]; metal-binding site 930169007278 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930169007279 periplasmic folding chaperone; Provisional; Region: PRK10788 930169007280 SurA N-terminal domain; Region: SurA_N_3; cl07813 930169007281 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930169007282 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 930169007283 IHF dimer interface [polypeptide binding]; other site 930169007284 IHF - DNA interface [nucleotide binding]; other site 930169007285 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 930169007286 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 930169007287 Walker A motif; other site 930169007288 ATP binding site [chemical binding]; other site 930169007289 Walker B motif; other site 930169007290 arginine finger; other site 930169007291 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 930169007292 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 930169007293 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 930169007294 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 930169007295 Walker A motif; other site 930169007296 ATP binding site [chemical binding]; other site 930169007297 Walker B motif; other site 930169007298 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 930169007299 Clp protease; Region: CLP_protease; pfam00574 930169007300 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 930169007301 oligomer interface [polypeptide binding]; other site 930169007302 active site residues [active] 930169007303 trigger factor; Provisional; Region: tig; PRK01490 930169007304 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930169007305 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 930169007306 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 930169007307 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 930169007308 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 930169007309 homodimer interface [polypeptide binding]; other site 930169007310 NADP binding site [chemical binding]; other site 930169007311 substrate binding site [chemical binding]; other site 930169007312 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 930169007313 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169007314 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169007315 Fusaric acid resistance protein family; Region: FUSC; pfam04632 930169007316 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 930169007317 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 930169007318 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 930169007319 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 930169007320 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930169007321 active site 930169007322 HIGH motif; other site 930169007323 nucleotide binding site [chemical binding]; other site 930169007324 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 930169007325 KMSKS motif; other site 930169007326 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 930169007327 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 930169007328 substrate binding site [chemical binding]; other site 930169007329 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 930169007330 substrate binding site [chemical binding]; other site 930169007331 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 930169007332 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169007333 putative active site [active] 930169007334 putative metal binding site [ion binding]; other site 930169007335 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 930169007336 active site 930169007337 dinuclear metal binding site [ion binding]; other site 930169007338 dimerization interface [polypeptide binding]; other site 930169007339 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 930169007340 putative acyl-acceptor binding pocket; other site 930169007341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169007342 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169007343 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 930169007344 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 930169007345 putative substrate translocation pore; other site 930169007346 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 930169007347 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 930169007348 substrate binding site [chemical binding]; other site 930169007349 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 930169007350 substrate binding site [chemical binding]; other site 930169007351 ligand binding site [chemical binding]; other site 930169007352 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 930169007353 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169007354 putative substrate translocation pore; other site 930169007355 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169007356 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169007357 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 930169007358 CoenzymeA binding site [chemical binding]; other site 930169007359 subunit interaction site [polypeptide binding]; other site 930169007360 PHB binding site; other site 930169007361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169007362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007363 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 930169007364 dimerization interface [polypeptide binding]; other site 930169007365 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 930169007366 Sulfatase; Region: Sulfatase; cl17466 930169007367 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 930169007368 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 930169007369 putative active site [active] 930169007370 putative Zn binding site [ion binding]; other site 930169007371 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169007372 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 930169007373 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 930169007374 Predicted integral membrane protein [Function unknown]; Region: COG5615 930169007375 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 930169007376 EamA-like transporter family; Region: EamA; pfam00892 930169007377 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 930169007378 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 930169007379 Protein export membrane protein; Region: SecD_SecF; cl14618 930169007380 Acyl CoA binding protein; Region: ACBP; pfam00887 930169007381 acyl-CoA binding pocket [chemical binding]; other site 930169007382 CoA binding site [chemical binding]; other site 930169007383 GAF domain; Region: GAF; cl17456 930169007384 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169007385 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 930169007386 N-terminal plug; other site 930169007387 ligand-binding site [chemical binding]; other site 930169007388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930169007389 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930169007390 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930169007391 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 930169007392 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 930169007393 putative acyl-acceptor binding pocket; other site 930169007394 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 930169007395 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 930169007396 active site 930169007397 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 930169007398 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 930169007399 ATP binding site [chemical binding]; other site 930169007400 putative Mg++ binding site [ion binding]; other site 930169007401 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 930169007402 nucleotide binding region [chemical binding]; other site 930169007403 ATP-binding site [chemical binding]; other site 930169007404 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 930169007405 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 930169007406 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169007407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007408 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 930169007409 dimerization interface [polypeptide binding]; other site 930169007410 glutathionine S-transferase; Provisional; Region: PRK10542 930169007411 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 930169007412 C-terminal domain interface [polypeptide binding]; other site 930169007413 GSH binding site (G-site) [chemical binding]; other site 930169007414 dimer interface [polypeptide binding]; other site 930169007415 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 930169007416 dimer interface [polypeptide binding]; other site 930169007417 N-terminal domain interface [polypeptide binding]; other site 930169007418 substrate binding pocket (H-site) [chemical binding]; other site 930169007419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169007420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007421 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 930169007422 dimerization interface [polypeptide binding]; other site 930169007423 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 930169007424 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930169007425 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 930169007426 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169007427 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 930169007428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169007429 Walker A/P-loop; other site 930169007430 ATP binding site [chemical binding]; other site 930169007431 Q-loop/lid; other site 930169007432 ABC transporter signature motif; other site 930169007433 Walker B; other site 930169007434 D-loop; other site 930169007435 H-loop/switch region; other site 930169007436 TOBE domain; Region: TOBE; pfam03459 930169007437 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 930169007438 putative PBP binding loops; other site 930169007439 ABC-ATPase subunit interface; other site 930169007440 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 930169007441 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 930169007442 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 930169007443 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 930169007444 active site residue [active] 930169007445 BolA-like protein; Region: BolA; cl00386 930169007446 Carboxylesterase family; Region: COesterase; pfam00135 930169007447 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 930169007448 substrate binding pocket [chemical binding]; other site 930169007449 catalytic triad [active] 930169007450 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 930169007451 malate dehydrogenase; Provisional; Region: PRK05442 930169007452 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 930169007453 NAD(P) binding site [chemical binding]; other site 930169007454 dimer interface [polypeptide binding]; other site 930169007455 malate binding site [chemical binding]; other site 930169007456 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 930169007457 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 930169007458 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 930169007459 NAD binding site [chemical binding]; other site 930169007460 active site 930169007461 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 930169007462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169007463 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 930169007464 dimer interface [polypeptide binding]; other site 930169007465 phosphorylation site [posttranslational modification] 930169007466 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 930169007467 ATP binding site [chemical binding]; other site 930169007468 Mg2+ binding site [ion binding]; other site 930169007469 G-X-G motif; other site 930169007470 Response regulator receiver domain; Region: Response_reg; pfam00072 930169007471 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 930169007472 active site 930169007473 phosphorylation site [posttranslational modification] 930169007474 intermolecular recognition site; other site 930169007475 dimerization interface [polypeptide binding]; other site 930169007476 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 930169007477 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 930169007478 DNA binding residues [nucleotide binding] 930169007479 putative dimer interface [polypeptide binding]; other site 930169007480 isovaleryl-CoA dehydrogenase; Region: PLN02519 930169007481 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 930169007482 substrate binding site [chemical binding]; other site 930169007483 FAD binding site [chemical binding]; other site 930169007484 catalytic base [active] 930169007485 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 930169007486 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 930169007487 enoyl-CoA hydratase; Provisional; Region: PRK05995 930169007488 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 930169007489 substrate binding site [chemical binding]; other site 930169007490 oxyanion hole (OAH) forming residues; other site 930169007491 trimer interface [polypeptide binding]; other site 930169007492 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 930169007493 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169007494 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930169007495 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 930169007496 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 930169007497 carboxyltransferase (CT) interaction site; other site 930169007498 biotinylation site [posttranslational modification]; other site 930169007499 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 930169007500 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 930169007501 acyl-activating enzyme (AAE) consensus motif; other site 930169007502 putative AMP binding site [chemical binding]; other site 930169007503 putative active site [active] 930169007504 putative CoA binding site [chemical binding]; other site 930169007505 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 930169007506 active site 930169007507 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169007508 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 930169007509 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169007510 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 930169007511 Cell division inhibitor SulA; Region: SulA; cl01880 930169007512 DNA Polymerase Y-family; Region: PolY_like; cd03468 930169007513 active site 930169007514 DNA binding site [nucleotide binding] 930169007515 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 930169007516 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 930169007517 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 930169007518 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 930169007519 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 930169007520 putative active site [active] 930169007521 putative PHP Thumb interface [polypeptide binding]; other site 930169007522 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 930169007523 generic binding surface II; other site 930169007524 generic binding surface I; other site 930169007525 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 930169007526 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 930169007527 active site 930169007528 HIGH motif; other site 930169007529 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 930169007530 active site 930169007531 KMSKS motif; other site 930169007532 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 930169007533 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 930169007534 Ligand Binding Site [chemical binding]; other site 930169007535 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 930169007536 Ligand Binding Site [chemical binding]; other site 930169007537 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930169007538 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 930169007539 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930169007540 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 930169007541 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 930169007542 Amidase; Region: Amidase; cl11426 930169007543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169007544 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169007545 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 930169007546 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 930169007547 FMN binding site [chemical binding]; other site 930169007548 active site 930169007549 catalytic residues [active] 930169007550 substrate binding site [chemical binding]; other site 930169007551 transaldolase-like protein; Provisional; Region: PTZ00411 930169007552 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 930169007553 active site 930169007554 dimer interface [polypeptide binding]; other site 930169007555 catalytic residue [active] 930169007556 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 930169007557 putative metal binding site [ion binding]; other site 930169007558 VacJ like lipoprotein; Region: VacJ; cl01073 930169007559 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 930169007560 hypothetical protein; Provisional; Region: PRK05409 930169007561 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 930169007562 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 930169007563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169007564 short chain dehydrogenase; Provisional; Region: PRK06197 930169007565 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 930169007566 putative NAD(P) binding site [chemical binding]; other site 930169007567 active site 930169007568 classical (c) SDRs; Region: SDR_c; cd05233 930169007569 short chain dehydrogenase; Provisional; Region: PRK07832 930169007570 NAD(P) binding site [chemical binding]; other site 930169007571 active site 930169007572 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 930169007573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169007574 NAD(P) binding site [chemical binding]; other site 930169007575 active site 930169007576 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169007577 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169007578 active site 930169007579 enoyl-CoA hydratase; Provisional; Region: PRK06494 930169007580 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 930169007581 substrate binding site [chemical binding]; other site 930169007582 oxyanion hole (OAH) forming residues; other site 930169007583 trimer interface [polypeptide binding]; other site 930169007584 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169007585 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169007586 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 930169007587 acyl-activating enzyme (AAE) consensus motif; other site 930169007588 acyl-activating enzyme (AAE) consensus motif; other site 930169007589 putative AMP binding site [chemical binding]; other site 930169007590 putative active site [active] 930169007591 putative CoA binding site [chemical binding]; other site 930169007592 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 930169007593 Phosphotransferase enzyme family; Region: APH; pfam01636 930169007594 putative active site [active] 930169007595 putative substrate binding site [chemical binding]; other site 930169007596 ATP binding site [chemical binding]; other site 930169007597 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169007598 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169007599 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169007600 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169007601 DctM-like transporters; Region: DctM; pfam06808 930169007602 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169007603 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169007604 succinic semialdehyde dehydrogenase; Region: PLN02278 930169007605 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 930169007606 tetramerization interface [polypeptide binding]; other site 930169007607 NAD(P) binding site [chemical binding]; other site 930169007608 catalytic residues [active] 930169007609 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 930169007610 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 930169007611 putative NAD(P) binding site [chemical binding]; other site 930169007612 catalytic Zn binding site [ion binding]; other site 930169007613 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 930169007614 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 930169007615 dimer interface [polypeptide binding]; other site 930169007616 active site 930169007617 CoA binding pocket [chemical binding]; other site 930169007618 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 930169007619 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 930169007620 ATP binding site [chemical binding]; other site 930169007621 putative Mg++ binding site [ion binding]; other site 930169007622 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 930169007623 nucleotide binding region [chemical binding]; other site 930169007624 ATP-binding site [chemical binding]; other site 930169007625 Helicase associated domain (HA2); Region: HA2; pfam04408 930169007626 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 930169007627 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 930169007628 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 930169007629 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 930169007630 protein binding site [polypeptide binding]; other site 930169007631 PDZ domain; Region: PDZ_2; pfam13180 930169007632 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 930169007633 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169007634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 930169007635 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 930169007636 substrate binding pocket [chemical binding]; other site 930169007637 membrane-bound complex binding site; other site 930169007638 hinge residues; other site 930169007639 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 930169007640 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 930169007641 substrate binding pocket [chemical binding]; other site 930169007642 membrane-bound complex binding site; other site 930169007643 hinge residues; other site 930169007644 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 930169007645 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169007646 catalytic residue [active] 930169007647 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 930169007648 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169007649 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930169007650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169007651 ligand binding site [chemical binding]; other site 930169007652 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 930169007653 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 930169007654 methionine sulfoxide reductase A; Provisional; Region: PRK14054 930169007655 methionine sulfoxide reductase B; Provisional; Region: PRK00222 930169007656 SelR domain; Region: SelR; pfam01641 930169007657 monocarboxylate transporter 1; Region: 2A0113; TIGR00892 930169007658 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 930169007659 putative substrate translocation pore; other site 930169007660 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 930169007661 CoenzymeA binding site [chemical binding]; other site 930169007662 subunit interaction site [polypeptide binding]; other site 930169007663 PHB binding site; other site 930169007664 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 930169007665 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 930169007666 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 930169007667 Soluble P-type ATPase [General function prediction only]; Region: COG4087 930169007668 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 930169007669 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 930169007670 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 930169007671 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 930169007672 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 930169007673 Ligand Binding Site [chemical binding]; other site 930169007674 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 930169007675 GAF domain; Region: GAF_3; pfam13492 930169007676 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 930169007677 dimer interface [polypeptide binding]; other site 930169007678 phosphorylation site [posttranslational modification] 930169007679 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 930169007680 ATP binding site [chemical binding]; other site 930169007681 Mg2+ binding site [ion binding]; other site 930169007682 G-X-G motif; other site 930169007683 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169007684 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 930169007685 active site 930169007686 phosphorylation site [posttranslational modification] 930169007687 intermolecular recognition site; other site 930169007688 dimerization interface [polypeptide binding]; other site 930169007689 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 930169007690 DNA binding site [nucleotide binding] 930169007691 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 930169007692 chorismate binding enzyme; Region: Chorismate_bind; cl10555 930169007693 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 930169007694 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 930169007695 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 930169007696 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 930169007697 acyl-activating enzyme (AAE) consensus motif; other site 930169007698 active site 930169007699 AMP binding site [chemical binding]; other site 930169007700 substrate binding site [chemical binding]; other site 930169007701 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 930169007702 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 930169007703 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 930169007704 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 930169007705 Cytochrome P450; Region: p450; cl12078 930169007706 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930169007707 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 930169007708 S-adenosylmethionine binding site [chemical binding]; other site 930169007709 Methyltransferase domain; Region: Methyltransf_12; pfam08242 930169007710 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 930169007711 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 930169007712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169007713 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 930169007714 Walker A/P-loop; other site 930169007715 ATP binding site [chemical binding]; other site 930169007716 Q-loop/lid; other site 930169007717 ABC transporter signature motif; other site 930169007718 Walker B; other site 930169007719 D-loop; other site 930169007720 H-loop/switch region; other site 930169007721 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930169007722 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 930169007723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169007724 Walker A/P-loop; other site 930169007725 ATP binding site [chemical binding]; other site 930169007726 Q-loop/lid; other site 930169007727 ABC transporter signature motif; other site 930169007728 Walker B; other site 930169007729 D-loop; other site 930169007730 H-loop/switch region; other site 930169007731 Condensation domain; Region: Condensation; pfam00668 930169007732 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 930169007733 Nonribosomal peptide synthase; Region: NRPS; pfam08415 930169007734 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 930169007735 acyl-activating enzyme (AAE) consensus motif; other site 930169007736 AMP binding site [chemical binding]; other site 930169007737 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169007738 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 930169007739 S-adenosylmethionine binding site [chemical binding]; other site 930169007740 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169007741 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 930169007742 Phosphopantetheine attachment site; Region: PP-binding; cl09936 930169007743 Condensation domain; Region: Condensation; pfam00668 930169007744 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 930169007745 Nonribosomal peptide synthase; Region: NRPS; pfam08415 930169007746 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 930169007747 acyl-activating enzyme (AAE) consensus motif; other site 930169007748 AMP binding site [chemical binding]; other site 930169007749 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 930169007750 Condensation domain; Region: Condensation; pfam00668 930169007751 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 930169007752 Nonribosomal peptide synthase; Region: NRPS; pfam08415 930169007753 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 930169007754 acyl-activating enzyme (AAE) consensus motif; other site 930169007755 AMP binding site [chemical binding]; other site 930169007756 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 930169007757 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169007758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169007759 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930169007760 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 930169007761 Walker A/P-loop; other site 930169007762 ATP binding site [chemical binding]; other site 930169007763 Q-loop/lid; other site 930169007764 ABC transporter signature motif; other site 930169007765 Walker B; other site 930169007766 D-loop; other site 930169007767 H-loop/switch region; other site 930169007768 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169007769 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 930169007770 N-terminal plug; other site 930169007771 ligand-binding site [chemical binding]; other site 930169007772 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169007773 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 930169007774 N-terminal plug; other site 930169007775 ligand-binding site [chemical binding]; other site 930169007776 Fatty acid desaturase; Region: FA_desaturase; pfam00487 930169007777 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 930169007778 putative di-iron ligands [ion binding]; other site 930169007779 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 930169007780 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 930169007781 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169007782 FAD binding pocket [chemical binding]; other site 930169007783 FAD binding motif [chemical binding]; other site 930169007784 phosphate binding motif [ion binding]; other site 930169007785 beta-alpha-beta structure motif; other site 930169007786 NAD binding pocket [chemical binding]; other site 930169007787 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 930169007788 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 930169007789 catalytic loop [active] 930169007790 iron binding site [ion binding]; other site 930169007791 Predicted membrane protein [Function unknown]; Region: COG2311 930169007792 TetR family transcriptional regulator; Provisional; Region: PRK14996 930169007793 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 930169007794 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 930169007795 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 930169007796 N-terminal plug; other site 930169007797 ligand-binding site [chemical binding]; other site 930169007798 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 930169007799 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 930169007800 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 930169007801 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 930169007802 Uncharacterized conserved protein [Function unknown]; Region: COG4744 930169007803 DNA-specific endonuclease I; Provisional; Region: PRK15137 930169007804 Endonuclease I; Region: Endonuclease_1; pfam04231 930169007805 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169007806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169007807 DNA-binding site [nucleotide binding]; DNA binding site 930169007808 2-isopropylmalate synthase; Validated; Region: PRK03739 930169007809 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 930169007810 active site 930169007811 catalytic residues [active] 930169007812 metal binding site [ion binding]; metal-binding site 930169007813 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 930169007814 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169007815 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007816 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007817 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007818 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007819 HTH-like domain; Region: HTH_21; pfam13276 930169007820 Integrase core domain; Region: rve; pfam00665 930169007821 Integrase core domain; Region: rve_3; pfam13683 930169007822 Transposase; Region: HTH_Tnp_1; pfam01527 930169007823 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 930169007824 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 930169007825 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 930169007826 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 930169007827 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 930169007828 protein binding site [polypeptide binding]; other site 930169007829 Transposase IS200 like; Region: Y1_Tnp; cl00848 930169007830 Predicted methyltransferase [General function prediction only]; Region: COG4798 930169007831 S-adenosylmethionine binding site [chemical binding]; other site 930169007832 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169007833 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 930169007834 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 930169007835 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 930169007836 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 930169007837 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 930169007838 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 930169007839 FeS/SAM binding site; other site 930169007840 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 930169007841 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 930169007842 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 930169007843 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 930169007844 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 930169007845 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169007846 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 930169007847 putative C-terminal domain interface [polypeptide binding]; other site 930169007848 putative GSH binding site (G-site) [chemical binding]; other site 930169007849 putative dimer interface [polypeptide binding]; other site 930169007850 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 930169007851 putative N-terminal domain interface [polypeptide binding]; other site 930169007852 putative dimer interface [polypeptide binding]; other site 930169007853 putative substrate binding pocket (H-site) [chemical binding]; other site 930169007854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169007855 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 930169007856 active site 930169007857 metal binding site [ion binding]; metal-binding site 930169007858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169007859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007860 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 930169007861 putative effector binding pocket; other site 930169007862 putative dimerization interface [polypeptide binding]; other site 930169007863 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 930169007864 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 930169007865 MltA-interacting protein MipA; Region: MipA; cl01504 930169007866 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169007867 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 930169007868 active site 930169007869 phosphorylation site [posttranslational modification] 930169007870 intermolecular recognition site; other site 930169007871 dimerization interface [polypeptide binding]; other site 930169007872 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 930169007873 DNA binding site [nucleotide binding] 930169007874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169007875 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 930169007876 dimer interface [polypeptide binding]; other site 930169007877 phosphorylation site [posttranslational modification] 930169007878 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 930169007879 ATP binding site [chemical binding]; other site 930169007880 Mg2+ binding site [ion binding]; other site 930169007881 G-X-G motif; other site 930169007882 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 930169007883 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 930169007884 multimer interface [polypeptide binding]; other site 930169007885 active site 930169007886 catalytic triad [active] 930169007887 dimer interface [polypeptide binding]; other site 930169007888 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 930169007889 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 930169007890 Walker A motif; other site 930169007891 ATP binding site [chemical binding]; other site 930169007892 Walker B motif; other site 930169007893 arginine finger; other site 930169007894 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930169007895 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 930169007896 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169007897 ligand binding site [chemical binding]; other site 930169007898 regulator interaction site; other site 930169007899 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 930169007900 ANTAR domain; Region: ANTAR; pfam03861 930169007901 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 930169007902 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 930169007903 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 930169007904 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 930169007905 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930169007906 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930169007907 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 930169007908 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 930169007909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169007910 DNA-binding site [nucleotide binding]; DNA binding site 930169007911 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 930169007912 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 930169007913 L-lactate permease; Region: Lactate_perm; cl00701 930169007914 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 930169007915 Cysteine-rich domain; Region: CCG; pfam02754 930169007916 Cysteine-rich domain; Region: CCG; pfam02754 930169007917 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 930169007918 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 930169007919 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 930169007920 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 930169007921 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 930169007922 FAD binding domain; Region: FAD_binding_4; pfam01565 930169007923 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 930169007924 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 930169007925 Cysteine-rich domain; Region: CCG; pfam02754 930169007926 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 930169007927 Fumarase C-terminus; Region: Fumerase_C; pfam05683 930169007928 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169007929 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 930169007930 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 930169007931 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 930169007932 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 930169007933 non-specific DNA binding site [nucleotide binding]; other site 930169007934 salt bridge; other site 930169007935 sequence-specific DNA binding site [nucleotide binding]; other site 930169007936 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 930169007937 Helix-turn-helix domain; Region: HTH_20; pfam12840 930169007938 Transposase IS200 like; Region: Y1_Tnp; cl00848 930169007939 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169007940 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169007941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169007942 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 930169007943 dimerization interface [polypeptide binding]; other site 930169007944 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 930169007945 short chain dehydrogenase; Provisional; Region: PRK12744 930169007946 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 930169007947 NADP binding site [chemical binding]; other site 930169007948 homodimer interface [polypeptide binding]; other site 930169007949 active site 930169007950 substrate binding site [chemical binding]; other site 930169007951 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 930169007952 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 930169007953 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 930169007954 dimerization interface [polypeptide binding]; other site 930169007955 putative DNA binding site [nucleotide binding]; other site 930169007956 putative Zn2+ binding site [ion binding]; other site 930169007957 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 930169007958 active site residue [active] 930169007959 Transposase IS200 like; Region: Y1_Tnp; cl00848 930169007960 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 930169007961 secondary substrate binding site; other site 930169007962 primary substrate binding site; other site 930169007963 inhibition loop; other site 930169007964 dimerization interface [polypeptide binding]; other site 930169007965 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169007966 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007967 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007968 Bacterial Ig-like domain; Region: Big_5; pfam13205 930169007969 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169007970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169007971 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169007972 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169007973 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169007974 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169007975 Transposase; Region: HTH_Tnp_1; cl17663 930169007976 Transposase IS200 like; Region: Y1_Tnp; cl00848 930169007977 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 930169007978 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 930169007979 Protein of unknown function (DUF465); Region: DUF465; pfam04325 930169007980 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 930169007981 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 930169007982 putative metal binding site [ion binding]; other site 930169007983 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 930169007984 HSP70 interaction site [polypeptide binding]; other site 930169007985 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 930169007986 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 930169007987 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 930169007988 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 930169007989 aminotransferase AlaT; Validated; Region: PRK09265 930169007990 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 930169007991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169007992 homodimer interface [polypeptide binding]; other site 930169007993 catalytic residue [active] 930169007994 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 930169007995 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 930169007996 S-adenosylmethionine binding site [chemical binding]; other site 930169007997 heat shock protein HtpX; Provisional; Region: PRK05457 930169007998 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169007999 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169008000 metal binding site [ion binding]; metal-binding site 930169008001 active site 930169008002 I-site; other site 930169008003 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 930169008004 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 930169008005 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 930169008006 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 930169008007 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 930169008008 Protein of unknown function DUF58; Region: DUF58; pfam01882 930169008009 MoxR-like ATPases [General function prediction only]; Region: COG0714 930169008010 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 930169008011 Walker A motif; other site 930169008012 ATP binding site [chemical binding]; other site 930169008013 Walker B motif; other site 930169008014 arginine finger; other site 930169008015 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 930169008016 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 930169008017 homodimer interface [polypeptide binding]; other site 930169008018 substrate-cofactor binding pocket; other site 930169008019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008020 catalytic residue [active] 930169008021 amidophosphoribosyltransferase; Provisional; Region: PRK09246 930169008022 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 930169008023 active site 930169008024 tetramer interface [polypeptide binding]; other site 930169008025 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169008026 active site 930169008027 Colicin V production protein; Region: Colicin_V; cl00567 930169008028 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 930169008029 Sporulation related domain; Region: SPOR; pfam05036 930169008030 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 930169008031 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169008032 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 930169008033 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 930169008034 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 930169008035 substrate binding site [chemical binding]; other site 930169008036 active site 930169008037 catalytic residues [active] 930169008038 heterodimer interface [polypeptide binding]; other site 930169008039 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 930169008040 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 930169008041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008042 catalytic residue [active] 930169008043 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 930169008044 active site 930169008045 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 930169008046 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 930169008047 dimerization interface 3.5A [polypeptide binding]; other site 930169008048 active site 930169008049 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169008050 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 930169008051 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 930169008052 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930169008053 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 930169008054 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930169008055 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 930169008056 tartrate dehydrogenase; Region: TTC; TIGR02089 930169008057 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 930169008058 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 930169008059 substrate binding site [chemical binding]; other site 930169008060 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 930169008061 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 930169008062 substrate binding site [chemical binding]; other site 930169008063 ligand binding site [chemical binding]; other site 930169008064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008066 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 930169008067 dimerization interface [polypeptide binding]; other site 930169008068 putative transposase OrfB; Reviewed; Region: PHA02517 930169008069 Integrase core domain; Region: rve; pfam00665 930169008070 Integrase core domain; Region: rve_3; pfam13683 930169008071 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 930169008072 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 930169008073 Tetramer interface [polypeptide binding]; other site 930169008074 active site 930169008075 FMN-binding site [chemical binding]; other site 930169008076 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 930169008077 S-adenosylmethionine binding site [chemical binding]; other site 930169008078 EVE domain; Region: EVE; pfam01878 930169008079 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 930169008080 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 930169008081 classical (c) SDRs; Region: SDR_c; cd05233 930169008082 NAD(P) binding site [chemical binding]; other site 930169008083 active site 930169008084 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 930169008085 Uncharacterized conserved protein [Function unknown]; Region: COG3268 930169008086 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169008087 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169008088 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 930169008089 DNA binding residues [nucleotide binding] 930169008090 fec operon regulator FecR; Reviewed; Region: PRK09774 930169008091 FecR protein; Region: FecR; pfam04773 930169008092 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169008093 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169008094 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 930169008095 N-terminal plug; other site 930169008096 ligand-binding site [chemical binding]; other site 930169008097 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169008098 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 930169008099 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 930169008100 DctM-like transporters; Region: DctM; pfam06808 930169008101 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 930169008102 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 930169008103 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169008104 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930169008105 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 930169008106 AsnC family; Region: AsnC_trans_reg; pfam01037 930169008107 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169008108 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 930169008109 nucleophilic elbow; other site 930169008110 catalytic triad; other site 930169008111 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169008112 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 930169008113 catalytic site [active] 930169008114 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 930169008115 putative catalytic site [active] 930169008116 putative phosphate binding site [ion binding]; other site 930169008117 active site 930169008118 metal binding site A [ion binding]; metal-binding site 930169008119 DNA binding site [nucleotide binding] 930169008120 putative AP binding site [nucleotide binding]; other site 930169008121 putative metal binding site B [ion binding]; other site 930169008122 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 930169008123 catalytic core [active] 930169008124 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 930169008125 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 930169008126 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 930169008127 heat shock protein 90; Provisional; Region: PRK05218 930169008128 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 930169008129 ATP binding site [chemical binding]; other site 930169008130 Mg2+ binding site [ion binding]; other site 930169008131 G-X-G motif; other site 930169008132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169008133 TIGR01777 family protein; Region: yfcH 930169008134 NAD(P) binding site [chemical binding]; other site 930169008135 active site 930169008136 Sm and related proteins; Region: Sm_like; cl00259 930169008137 Protein of unknown function, DUF393; Region: DUF393; pfam04134 930169008138 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 930169008139 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 930169008140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169008141 SseB protein; Region: SseB; cl06279 930169008142 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 930169008143 active site 930169008144 oligomerization interface [polypeptide binding]; other site 930169008145 metal binding site [ion binding]; metal-binding site 930169008146 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930169008147 Beta-lactamase; Region: Beta-lactamase; pfam00144 930169008148 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 930169008149 CoA binding domain; Region: CoA_binding; smart00881 930169008150 CoA-ligase; Region: Ligase_CoA; pfam00549 930169008151 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 930169008152 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 930169008153 CoA-ligase; Region: Ligase_CoA; pfam00549 930169008154 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 930169008155 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169008156 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930169008157 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 930169008158 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 930169008159 E3 interaction surface; other site 930169008160 lipoyl attachment site [posttranslational modification]; other site 930169008161 e3 binding domain; Region: E3_binding; pfam02817 930169008162 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 930169008163 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 930169008164 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 930169008165 TPP-binding site [chemical binding]; other site 930169008166 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 930169008167 dimer interface [polypeptide binding]; other site 930169008168 PYR/PP interface [polypeptide binding]; other site 930169008169 TPP binding site [chemical binding]; other site 930169008170 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 930169008171 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 930169008172 L-aspartate oxidase; Provisional; Region: PRK06175 930169008173 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 930169008174 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930169008175 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 930169008176 SdhC subunit interface [polypeptide binding]; other site 930169008177 proximal heme binding site [chemical binding]; other site 930169008178 cardiolipin binding site; other site 930169008179 Iron-sulfur protein interface; other site 930169008180 proximal quinone binding site [chemical binding]; other site 930169008181 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 930169008182 Iron-sulfur protein interface; other site 930169008183 proximal quinone binding site [chemical binding]; other site 930169008184 SdhD (CybS) interface [polypeptide binding]; other site 930169008185 proximal heme binding site [chemical binding]; other site 930169008186 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 930169008187 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 930169008188 dimer interface [polypeptide binding]; other site 930169008189 active site 930169008190 citrylCoA binding site [chemical binding]; other site 930169008191 NADH binding [chemical binding]; other site 930169008192 cationic pore residues; other site 930169008193 oxalacetate/citrate binding site [chemical binding]; other site 930169008194 coenzyme A binding site [chemical binding]; other site 930169008195 catalytic triad [active] 930169008196 Part of AAA domain; Region: AAA_19; pfam13245 930169008197 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 930169008198 AAA domain; Region: AAA_12; pfam13087 930169008199 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 930169008200 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 930169008201 Strictosidine synthase; Region: Str_synth; pfam03088 930169008202 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 930169008203 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 930169008204 Amidohydrolase; Region: Amidohydro_2; pfam04909 930169008205 active site 930169008206 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 930169008207 RES domain; Region: RES; smart00953 930169008208 hydroxyglutarate oxidase; Provisional; Region: PRK11728 930169008209 Predicted dehydrogenase [General function prediction only]; Region: COG0579 930169008210 Cupin; Region: Cupin_6; pfam12852 930169008211 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169008212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169008213 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169008214 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169008215 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169008216 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169008217 Protein export membrane protein; Region: SecD_SecF; cl14618 930169008218 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 930169008219 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 930169008220 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 930169008221 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 930169008222 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 930169008223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 930169008224 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 930169008225 Uncharacterized conserved protein [Function unknown]; Region: COG2308 930169008226 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 930169008227 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 930169008228 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 930169008229 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 930169008230 Ligand binding site [chemical binding]; other site 930169008231 Electron transfer flavoprotein domain; Region: ETF; pfam01012 930169008232 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 930169008233 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 930169008234 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 930169008235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008237 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 930169008238 dimerization interface [polypeptide binding]; other site 930169008239 Predicted amidohydrolase [General function prediction only]; Region: COG0388 930169008240 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 930169008241 putative active site [active] 930169008242 catalytic triad [active] 930169008243 putative dimer interface [polypeptide binding]; other site 930169008244 NAD-dependent deacetylase; Provisional; Region: PRK00481 930169008245 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 930169008246 NAD+ binding site [chemical binding]; other site 930169008247 substrate binding site [chemical binding]; other site 930169008248 Zn binding site [ion binding]; other site 930169008249 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 930169008250 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930169008251 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169008252 Ion transport protein; Region: Ion_trans; pfam00520 930169008253 Ion channel; Region: Ion_trans_2; pfam07885 930169008254 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 930169008255 Double zinc ribbon; Region: DZR; pfam12773 930169008256 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 930169008257 nitrite reductase subunit NirD; Provisional; Region: PRK14989 930169008258 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169008259 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169008260 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930169008261 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 930169008262 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930169008263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 930169008264 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 930169008265 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169008266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169008267 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 930169008268 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 930169008269 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169008270 catalytic residue [active] 930169008271 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 930169008272 active site 930169008273 substrate binding sites [chemical binding]; other site 930169008274 RmuC family; Region: RmuC; pfam02646 930169008275 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 930169008276 active site 930169008277 PilZ domain; Region: PilZ; cl01260 930169008278 DNA polymerase III subunit delta'; Validated; Region: PRK05707 930169008279 DNA polymerase III subunit delta'; Validated; Region: PRK08485 930169008280 thymidylate kinase; Validated; Region: tmk; PRK00698 930169008281 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 930169008282 TMP-binding site; other site 930169008283 ATP-binding site [chemical binding]; other site 930169008284 YceG-like family; Region: YceG; pfam02618 930169008285 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 930169008286 dimerization interface [polypeptide binding]; other site 930169008287 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 930169008288 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 930169008289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008290 catalytic residue [active] 930169008291 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 930169008292 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 930169008293 dimer interface [polypeptide binding]; other site 930169008294 active site 930169008295 acyl carrier protein; Provisional; Region: acpP; PRK00982 930169008296 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930169008297 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 930169008298 NAD(P) binding site [chemical binding]; other site 930169008299 homotetramer interface [polypeptide binding]; other site 930169008300 homodimer interface [polypeptide binding]; other site 930169008301 active site 930169008302 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 930169008303 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 930169008304 putative phosphate acyltransferase; Provisional; Region: PRK05331 930169008305 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 930169008306 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 930169008307 Maf-like protein; Region: Maf; pfam02545 930169008308 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 930169008309 active site 930169008310 dimer interface [polypeptide binding]; other site 930169008311 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 930169008312 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 930169008313 tandem repeat interface [polypeptide binding]; other site 930169008314 oligomer interface [polypeptide binding]; other site 930169008315 active site residues [active] 930169008316 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 930169008317 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 930169008318 motif II; other site 930169008319 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 930169008320 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 930169008321 RNA binding surface [nucleotide binding]; other site 930169008322 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930169008323 active site 930169008324 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 930169008325 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 930169008326 homodimer interface [polypeptide binding]; other site 930169008327 oligonucleotide binding site [chemical binding]; other site 930169008328 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 930169008329 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 930169008330 active site 930169008331 Int/Topo IB signature motif; other site 930169008332 DNA binding site [nucleotide binding] 930169008333 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 930169008334 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 930169008335 hypothetical protein; Reviewed; Region: PRK00024 930169008336 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930169008337 MPN+ (JAMM) motif; other site 930169008338 Zinc-binding site [ion binding]; other site 930169008339 Methyltransferase domain; Region: Methyltransf_26; pfam13659 930169008340 Domain of unknown function (DUF932); Region: DUF932; pfam06067 930169008341 ParB-like nuclease domain; Region: ParBc; pfam02195 930169008342 Uncharacterized conserved protein [Function unknown]; Region: COG5489 930169008343 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 930169008344 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 930169008345 non-specific DNA binding site [nucleotide binding]; other site 930169008346 salt bridge; other site 930169008347 sequence-specific DNA binding site [nucleotide binding]; other site 930169008348 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 930169008349 Uncharacterized conserved protein [Function unknown]; Region: COG5419 930169008350 Helix-turn-helix domain; Region: HTH_17; cl17695 930169008351 Replication initiator protein A; Region: RPA; pfam10134 930169008352 ParA-like protein; Provisional; Region: PHA02518 930169008353 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 930169008354 P-loop; other site 930169008355 Magnesium ion binding site [ion binding]; other site 930169008356 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 930169008357 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 930169008358 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 930169008359 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 930169008360 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 930169008361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008363 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 930169008364 dimerization interface [polypeptide binding]; other site 930169008365 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 930169008366 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169008367 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169008368 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 930169008369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 930169008370 Transposase; Region: DDE_Tnp_ISL3; pfam01610 930169008371 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 930169008372 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169008373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169008374 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 930169008375 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169008376 active site 930169008377 catalytic tetrad [active] 930169008378 Integrase core domain; Region: rve; pfam00665 930169008379 Integrase core domain; Region: rve_3; cl15866 930169008380 major facilitator superfamily transporter; Provisional; Region: PRK05122 930169008381 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 930169008382 putative substrate translocation pore; other site 930169008383 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930169008384 Integrase core domain; Region: rve; pfam00665 930169008385 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 930169008386 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 930169008387 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 930169008388 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 930169008389 Walker A motif; other site 930169008390 ATP binding site [chemical binding]; other site 930169008391 Walker B motif; other site 930169008392 Predicted transcriptional regulator [Transcription]; Region: COG2378 930169008393 HTH domain; Region: HTH_11; pfam08279 930169008394 WYL domain; Region: WYL; pfam13280 930169008395 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169008396 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 930169008397 dimer interface [polypeptide binding]; other site 930169008398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008400 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 930169008401 putative effector binding pocket; other site 930169008402 putative dimerization interface [polypeptide binding]; other site 930169008403 short chain dehydrogenase; Provisional; Region: PRK12937 930169008404 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 930169008405 NADP binding site [chemical binding]; other site 930169008406 homodimer interface [polypeptide binding]; other site 930169008407 active site 930169008408 substrate binding site [chemical binding]; other site 930169008409 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 930169008410 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 930169008411 NADP binding site [chemical binding]; other site 930169008412 active site 930169008413 steroid binding site; other site 930169008414 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 930169008415 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 930169008416 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 930169008417 Predicted membrane protein [Function unknown]; Region: COG2259 930169008418 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 930169008419 putative substrate translocation pore; other site 930169008420 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169008421 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169008422 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169008423 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 930169008424 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 930169008425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169008426 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 930169008427 NAD(P) binding site [chemical binding]; other site 930169008428 active site 930169008429 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169008430 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169008431 WHG domain; Region: WHG; pfam13305 930169008432 short chain dehydrogenase; Validated; Region: PRK06182 930169008433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169008434 NAD(P) binding site [chemical binding]; other site 930169008435 active site 930169008436 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169008437 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930169008438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008440 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 930169008441 dimerization interface [polypeptide binding]; other site 930169008442 substrate binding pocket [chemical binding]; other site 930169008443 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 930169008444 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 930169008445 Walker A motif; other site 930169008446 ATP binding site [chemical binding]; other site 930169008447 Walker B motif; other site 930169008448 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 930169008449 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 930169008450 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 930169008451 ATP binding site [chemical binding]; other site 930169008452 Walker A motif; other site 930169008453 hexamer interface [polypeptide binding]; other site 930169008454 Walker B motif; other site 930169008455 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 930169008456 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 930169008457 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 930169008458 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 930169008459 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 930169008460 Walker A motif; other site 930169008461 ATP binding site [chemical binding]; other site 930169008462 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 930169008463 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 930169008464 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 930169008465 conjugal transfer protein TrbL; Provisional; Region: PRK13875 930169008466 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 930169008467 conjugal transfer protein TrbF; Provisional; Region: PRK13872 930169008468 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 930169008469 VirB7 interaction site; other site 930169008470 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 930169008471 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 930169008472 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 930169008473 FAD binding domain; Region: FAD_binding_4; pfam01565 930169008474 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 930169008475 Low molecular weight phosphatase family; Region: LMWPc; cd00115 930169008476 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 930169008477 active site 930169008478 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 930169008479 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 930169008480 Ligand binding site; other site 930169008481 oligomer interface; other site 930169008482 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 930169008483 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 930169008484 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 930169008485 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930169008486 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 930169008487 Walker A/P-loop; other site 930169008488 ATP binding site [chemical binding]; other site 930169008489 Q-loop/lid; other site 930169008490 ABC transporter signature motif; other site 930169008491 Walker B; other site 930169008492 D-loop; other site 930169008493 H-loop/switch region; other site 930169008494 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930169008495 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 930169008496 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 930169008497 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 930169008498 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 930169008499 Competence protein; Region: Competence; pfam03772 930169008500 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 930169008501 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 930169008502 Protein of unknown function, DUF462; Region: DUF462; pfam04315 930169008503 multidrug efflux protein; Reviewed; Region: PRK01766 930169008504 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 930169008505 cation binding site [ion binding]; other site 930169008506 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169008507 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169008508 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169008509 Protein export membrane protein; Region: SecD_SecF; cl14618 930169008510 GH3 auxin-responsive promoter; Region: GH3; pfam03321 930169008511 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 930169008512 CPxP motif; other site 930169008513 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 930169008514 muropeptide transporter; Validated; Region: ampG; cl17669 930169008515 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 930169008516 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 930169008517 S-adenosylmethionine binding site [chemical binding]; other site 930169008518 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 930169008519 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 930169008520 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 930169008521 putative active site [active] 930169008522 putative substrate binding site [chemical binding]; other site 930169008523 putative cosubstrate binding site; other site 930169008524 catalytic site [active] 930169008525 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169008526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169008527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169008528 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 930169008529 CoenzymeA binding site [chemical binding]; other site 930169008530 subunit interaction site [polypeptide binding]; other site 930169008531 PHB binding site; other site 930169008532 Nif-specific regulatory protein; Region: nifA; TIGR01817 930169008533 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 930169008534 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 930169008535 Walker A motif; other site 930169008536 ATP binding site [chemical binding]; other site 930169008537 Walker B motif; other site 930169008538 arginine finger; other site 930169008539 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169008540 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169008541 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 930169008542 dimer interface [polypeptide binding]; other site 930169008543 conserved gate region; other site 930169008544 putative PBP binding loops; other site 930169008545 ABC-ATPase subunit interface; other site 930169008546 NMT1-like family; Region: NMT1_2; pfam13379 930169008547 NMT1/THI5 like; Region: NMT1; pfam09084 930169008548 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169008549 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169008550 Walker A/P-loop; other site 930169008551 ATP binding site [chemical binding]; other site 930169008552 Q-loop/lid; other site 930169008553 ABC transporter signature motif; other site 930169008554 Walker B; other site 930169008555 D-loop; other site 930169008556 H-loop/switch region; other site 930169008557 OsmC-like protein; Region: OsmC; pfam02566 930169008558 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169008559 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169008560 active site 930169008561 Rubredoxin [Energy production and conversion]; Region: COG1773 930169008562 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 930169008563 iron binding site [ion binding]; other site 930169008564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 930169008565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169008566 cyanate hydratase; Validated; Region: PRK02866 930169008567 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 930169008568 oligomer interface [polypeptide binding]; other site 930169008569 active site 930169008570 putative outer membrane receptor; Provisional; Region: PRK13513 930169008571 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 930169008572 N-terminal plug; other site 930169008573 ligand-binding site [chemical binding]; other site 930169008574 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 930169008575 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 930169008576 MoaE homodimer interface [polypeptide binding]; other site 930169008577 MoaD interaction [polypeptide binding]; other site 930169008578 active site residues [active] 930169008579 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 930169008580 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 930169008581 FeS/SAM binding site; other site 930169008582 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 930169008583 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 930169008584 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 930169008585 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169008586 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 930169008587 putative hydrophobic ligand binding site [chemical binding]; other site 930169008588 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 930169008589 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 930169008590 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 930169008591 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 930169008592 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169008593 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169008594 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169008595 acyl-activating enzyme (AAE) consensus motif; other site 930169008596 acyl-activating enzyme (AAE) consensus motif; other site 930169008597 AMP binding site [chemical binding]; other site 930169008598 active site 930169008599 CoA binding site [chemical binding]; other site 930169008600 enoyl-CoA hydratase; Provisional; Region: PRK06688 930169008601 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 930169008602 substrate binding site [chemical binding]; other site 930169008603 oxyanion hole (OAH) forming residues; other site 930169008604 trimer interface [polypeptide binding]; other site 930169008605 benzoate transporter; Region: benE; TIGR00843 930169008606 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 930169008607 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 930169008608 DctM-like transporters; Region: DctM; pfam06808 930169008609 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169008610 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169008611 thiamine pyrophosphate protein; Validated; Region: PRK08199 930169008612 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930169008613 PYR/PP interface [polypeptide binding]; other site 930169008614 dimer interface [polypeptide binding]; other site 930169008615 TPP binding site [chemical binding]; other site 930169008616 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930169008617 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 930169008618 TPP-binding site [chemical binding]; other site 930169008619 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930169008620 classical (c) SDRs; Region: SDR_c; cd05233 930169008621 NAD(P) binding site [chemical binding]; other site 930169008622 active site 930169008623 DctM-like transporters; Region: DctM; pfam06808 930169008624 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169008625 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169008626 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169008627 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169008628 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 930169008629 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 930169008630 phosphate binding site [ion binding]; other site 930169008631 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 930169008632 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169008633 trimer interface [polypeptide binding]; other site 930169008634 eyelet of channel; other site 930169008635 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 930169008636 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 930169008637 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 930169008638 active site pocket [active] 930169008639 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169008640 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169008641 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169008642 DctM-like transporters; Region: DctM; pfam06808 930169008643 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 930169008644 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169008645 NAD(P) binding site [chemical binding]; other site 930169008646 catalytic residues [active] 930169008647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008649 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 930169008650 dimerization interface [polypeptide binding]; other site 930169008651 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 930169008652 Flavoprotein; Region: Flavoprotein; pfam02441 930169008653 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 930169008654 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 930169008655 XdhC Rossmann domain; Region: XdhC_C; pfam13478 930169008656 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169008657 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169008658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169008659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 930169008660 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 930169008661 heme binding pocket [chemical binding]; other site 930169008662 heme ligand [chemical binding]; other site 930169008663 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 930169008664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169008665 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169008666 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 930169008667 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 930169008668 Walker A/P-loop; other site 930169008669 ATP binding site [chemical binding]; other site 930169008670 Q-loop/lid; other site 930169008671 ABC transporter signature motif; other site 930169008672 Walker B; other site 930169008673 D-loop; other site 930169008674 H-loop/switch region; other site 930169008675 Heme-binding protein A (HasA); Region: HasA; pfam06438 930169008676 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169008677 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 930169008678 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 930169008679 N-terminal plug; other site 930169008680 ligand-binding site [chemical binding]; other site 930169008681 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169008682 FecR protein; Region: FecR; pfam04773 930169008683 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169008684 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169008685 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 930169008686 DNA binding residues [nucleotide binding] 930169008687 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 930169008688 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 930169008689 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 930169008690 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 930169008691 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 930169008692 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 930169008693 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 930169008694 substrate binding site [chemical binding]; other site 930169008695 oxyanion hole (OAH) forming residues; other site 930169008696 trimer interface [polypeptide binding]; other site 930169008697 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169008698 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 930169008699 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169008700 active site 930169008701 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169008702 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169008703 active site 930169008704 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 930169008705 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169008706 eyelet of channel; other site 930169008707 trimer interface [polypeptide binding]; other site 930169008708 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169008709 Uncharacterized conserved protein [Function unknown]; Region: COG5361 930169008710 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 930169008711 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 930169008712 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169008713 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169008714 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 930169008715 CoA binding domain; Region: CoA_binding_2; pfam13380 930169008716 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 930169008717 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 930169008718 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169008719 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169008720 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169008721 DctM-like transporters; Region: DctM; pfam06808 930169008722 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169008723 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169008724 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 930169008725 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169008726 DNA-binding site [nucleotide binding]; DNA binding site 930169008727 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 930169008728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008729 homodimer interface [polypeptide binding]; other site 930169008730 catalytic residue [active] 930169008731 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 930169008732 Predicted amidohydrolase [General function prediction only]; Region: COG0388 930169008733 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 930169008734 putative active site [active] 930169008735 catalytic triad [active] 930169008736 putative dimer interface [polypeptide binding]; other site 930169008737 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 930169008738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169008739 Coenzyme A binding pocket [chemical binding]; other site 930169008740 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 930169008741 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 930169008742 dimerization interface [polypeptide binding]; other site 930169008743 putative ATP binding site [chemical binding]; other site 930169008744 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 930169008745 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 930169008746 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169008747 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 930169008748 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 930169008749 heme binding site [chemical binding]; other site 930169008750 ferroxidase pore; other site 930169008751 ferroxidase diiron center [ion binding]; other site 930169008752 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 930169008753 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 930169008754 substrate binding site [chemical binding]; other site 930169008755 oxyanion hole (OAH) forming residues; other site 930169008756 trimer interface [polypeptide binding]; other site 930169008757 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 930169008758 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 930169008759 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 930169008760 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 930169008761 dimer interface [polypeptide binding]; other site 930169008762 active site 930169008763 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 930169008764 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 930169008765 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 930169008766 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169008767 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169008768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 930169008769 Smr domain; Region: Smr; pfam01713 930169008770 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 930169008771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169008772 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 930169008773 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 930169008774 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 930169008775 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 930169008776 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 930169008777 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 930169008778 dimerization interface [polypeptide binding]; other site 930169008779 putative ATP binding site [chemical binding]; other site 930169008780 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 930169008781 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 930169008782 active site 930169008783 substrate binding site [chemical binding]; other site 930169008784 cosubstrate binding site; other site 930169008785 catalytic site [active] 930169008786 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 930169008787 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 930169008788 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 930169008789 trimer interface [polypeptide binding]; other site 930169008790 active site 930169008791 Domain of unknown function DUF59; Region: DUF59; pfam01883 930169008792 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 930169008793 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 930169008794 Walker A motif; other site 930169008795 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 930169008796 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 930169008797 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 930169008798 active site 930169008799 nucleophile elbow; other site 930169008800 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 930169008801 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 930169008802 dimer interface [polypeptide binding]; other site 930169008803 decamer (pentamer of dimers) interface [polypeptide binding]; other site 930169008804 catalytic triad [active] 930169008805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169008806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169008807 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 930169008808 putative effector binding pocket; other site 930169008809 dimerization interface [polypeptide binding]; other site 930169008810 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 930169008811 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169008812 putative NAD(P) binding site [chemical binding]; other site 930169008813 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 930169008814 S-adenosylmethionine binding site [chemical binding]; other site 930169008815 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 930169008816 Domain of unknown function (DUF333); Region: DUF333; pfam03891 930169008817 hypothetical protein; Validated; Region: PRK00068 930169008818 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 930169008819 Survival protein SurE; Region: SurE; pfam01975 930169008820 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 930169008821 active site residue [active] 930169008822 MarR family; Region: MarR_2; pfam12802 930169008823 MarR family; Region: MarR_2; cl17246 930169008824 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 930169008825 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 930169008826 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 930169008827 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 930169008828 catalytic loop [active] 930169008829 iron binding site [ion binding]; other site 930169008830 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 930169008831 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 930169008832 [4Fe-4S] binding site [ion binding]; other site 930169008833 molybdopterin cofactor binding site; other site 930169008834 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 930169008835 molybdopterin cofactor binding site; other site 930169008836 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 930169008837 putative dimer interface [polypeptide binding]; other site 930169008838 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 930169008839 SLBB domain; Region: SLBB; pfam10531 930169008840 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 930169008841 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 930169008842 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 930169008843 putative dimer interface [polypeptide binding]; other site 930169008844 [2Fe-2S] cluster binding site [ion binding]; other site 930169008845 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 930169008846 PBP superfamily domain; Region: PBP_like; pfam12727 930169008847 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 930169008848 putative substrate translocation pore; other site 930169008849 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 930169008850 DNA binding site [nucleotide binding] 930169008851 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 930169008852 active site 930169008853 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 930169008854 DNA binding site [nucleotide binding] 930169008855 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 930169008856 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 930169008857 putative NADP binding site [chemical binding]; other site 930169008858 putative substrate binding site [chemical binding]; other site 930169008859 active site 930169008860 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 930169008861 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 930169008862 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 930169008863 S-adenosylmethionine binding site [chemical binding]; other site 930169008864 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 930169008865 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 930169008866 N-acetyl-D-glucosamine binding site [chemical binding]; other site 930169008867 catalytic residue [active] 930169008868 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 930169008869 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 930169008870 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 930169008871 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 930169008872 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 930169008873 active site 2 [active] 930169008874 active site 1 [active] 930169008875 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 930169008876 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 930169008877 classical (c) SDRs; Region: SDR_c; cd05233 930169008878 NAD(P) binding site [chemical binding]; other site 930169008879 active site 930169008880 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 930169008881 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 930169008882 FeS/SAM binding site; other site 930169008883 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 930169008884 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 930169008885 putative active site [active] 930169008886 putative metal binding site [ion binding]; other site 930169008887 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 930169008888 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 930169008889 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 930169008890 dimer interface [polypeptide binding]; other site 930169008891 phosphorylation site [posttranslational modification] 930169008892 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 930169008893 ATP binding site [chemical binding]; other site 930169008894 Mg2+ binding site [ion binding]; other site 930169008895 G-X-G motif; other site 930169008896 Response regulator receiver domain; Region: Response_reg; pfam00072 930169008897 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 930169008898 active site 930169008899 phosphorylation site [posttranslational modification] 930169008900 intermolecular recognition site; other site 930169008901 dimerization interface [polypeptide binding]; other site 930169008902 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 930169008903 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 930169008904 active site 930169008905 HIGH motif; other site 930169008906 KMSKS motif; other site 930169008907 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 930169008908 anticodon binding site; other site 930169008909 tRNA binding surface [nucleotide binding]; other site 930169008910 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 930169008911 dimer interface [polypeptide binding]; other site 930169008912 putative tRNA-binding site [nucleotide binding]; other site 930169008913 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 930169008914 dimer interface [polypeptide binding]; other site 930169008915 electron transport complex protein RsxA; Provisional; Region: PRK05151 930169008916 ferredoxin; Provisional; Region: PRK08764 930169008917 Putative Fe-S cluster; Region: FeS; pfam04060 930169008918 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 930169008919 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 930169008920 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 930169008921 SLBB domain; Region: SLBB; pfam10531 930169008922 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 930169008923 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 930169008924 FMN-binding domain; Region: FMN_bind; cl01081 930169008925 electron transport complex RsxE subunit; Provisional; Region: PRK12405 930169008926 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 930169008927 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 930169008928 endonuclease III; Provisional; Region: PRK10702 930169008929 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 930169008930 minor groove reading motif; other site 930169008931 helix-hairpin-helix signature motif; other site 930169008932 substrate binding pocket [chemical binding]; other site 930169008933 active site 930169008934 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 930169008935 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 930169008936 Helix-hairpin-helix motif; Region: HHH; pfam00633 930169008937 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 930169008938 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 930169008939 active site 930169008940 dimer interface [polypeptide binding]; other site 930169008941 tetratricopeptide repeat protein; Provisional; Region: PRK11788 930169008942 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 930169008943 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 930169008944 IHF dimer interface [polypeptide binding]; other site 930169008945 IHF - DNA interface [nucleotide binding]; other site 930169008946 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 930169008947 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 930169008948 RNA binding site [nucleotide binding]; other site 930169008949 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 930169008950 RNA binding site [nucleotide binding]; other site 930169008951 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 930169008952 RNA binding site [nucleotide binding]; other site 930169008953 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 930169008954 RNA binding site [nucleotide binding]; other site 930169008955 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 930169008956 RNA binding site [nucleotide binding]; other site 930169008957 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 930169008958 RNA binding site [nucleotide binding]; other site 930169008959 cytidylate kinase; Provisional; Region: cmk; PRK00023 930169008960 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 930169008961 CMP-binding site; other site 930169008962 The sites determining sugar specificity; other site 930169008963 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 930169008964 prephenate dehydrogenase; Validated; Region: PRK08507 930169008965 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 930169008966 hinge; other site 930169008967 active site 930169008968 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 930169008969 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 930169008970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008971 homodimer interface [polypeptide binding]; other site 930169008972 catalytic residue [active] 930169008973 Chorismate mutase type II; Region: CM_2; cl00693 930169008974 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 930169008975 Prephenate dehydratase; Region: PDT; pfam00800 930169008976 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 930169008977 putative L-Phe binding site [chemical binding]; other site 930169008978 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 930169008979 homodimer interface [polypeptide binding]; other site 930169008980 substrate-cofactor binding pocket; other site 930169008981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169008982 catalytic residue [active] 930169008983 DNA gyrase subunit A; Validated; Region: PRK05560 930169008984 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 930169008985 CAP-like domain; other site 930169008986 active site 930169008987 primary dimer interface [polypeptide binding]; other site 930169008988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930169008989 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930169008990 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930169008991 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930169008992 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 930169008993 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 930169008994 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 930169008995 active site 930169008996 putative substrate binding pocket [chemical binding]; other site 930169008997 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 930169008998 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 930169008999 S-adenosylmethionine binding site [chemical binding]; other site 930169009000 phosphoglycolate phosphatase; Provisional; Region: PRK13222 930169009001 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 930169009002 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 930169009003 motif II; other site 930169009004 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 930169009005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169009006 NAD(P) binding site [chemical binding]; other site 930169009007 active site 930169009008 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 930169009009 ABC1 family; Region: ABC1; cl17513 930169009010 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169009011 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169009012 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169009013 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169009014 PilZ domain; Region: PilZ; pfam07238 930169009015 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 930169009016 S-adenosylmethionine binding site [chemical binding]; other site 930169009017 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 930169009018 nucleotide binding site/active site [active] 930169009019 HIT family signature motif; other site 930169009020 catalytic residue [active] 930169009021 hypothetical protein; Provisional; Region: PRK05170 930169009022 YcgL domain; Region: YcgL; cl01189 930169009023 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 930169009024 ribonuclease D; Region: rnd; TIGR01388 930169009025 catalytic site [active] 930169009026 putative active site [active] 930169009027 putative substrate binding site [chemical binding]; other site 930169009028 HRDC domain; Region: HRDC; pfam00570 930169009029 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 930169009030 catalytic core [active] 930169009031 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 930169009032 lipase chaperone; Provisional; Region: PRK01294 930169009033 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 930169009034 Lipase (class 2); Region: Lipase_2; pfam01674 930169009035 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 930169009036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169009037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169009038 active site 930169009039 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 930169009040 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 930169009041 putative active site [active] 930169009042 metal binding site [ion binding]; metal-binding site 930169009043 recombination protein RecR; Reviewed; Region: recR; PRK00076 930169009044 RecR protein; Region: RecR; pfam02132 930169009045 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 930169009046 putative active site [active] 930169009047 putative metal-binding site [ion binding]; other site 930169009048 tetramer interface [polypeptide binding]; other site 930169009049 hypothetical protein; Validated; Region: PRK00153 930169009050 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 930169009051 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 930169009052 Walker A motif; other site 930169009053 ATP binding site [chemical binding]; other site 930169009054 Walker B motif; other site 930169009055 arginine finger; other site 930169009056 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 930169009057 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 930169009058 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 930169009059 putative dimer interface [polypeptide binding]; other site 930169009060 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 930169009061 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 930169009062 Predicted transcriptional regulators [Transcription]; Region: COG1695 930169009063 Transcriptional regulator PadR-like family; Region: PadR; cl17335 930169009064 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 930169009065 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 930169009066 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 930169009067 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 930169009068 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 930169009069 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 930169009070 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 930169009071 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 930169009072 FtsX-like permease family; Region: FtsX; pfam02687 930169009073 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 930169009074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169009075 Q-loop/lid; other site 930169009076 ABC transporter signature motif; other site 930169009077 Walker B; other site 930169009078 D-loop; other site 930169009079 H-loop/switch region; other site 930169009080 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 930169009081 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 930169009082 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 930169009083 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 930169009084 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 930169009085 active site 930169009086 substrate binding pocket [chemical binding]; other site 930169009087 dimer interface [polypeptide binding]; other site 930169009088 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169009089 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169009090 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169009091 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169009092 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169009093 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169009094 DctM-like transporters; Region: DctM; pfam06808 930169009095 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169009096 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169009097 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169009098 acyl-activating enzyme (AAE) consensus motif; other site 930169009099 acyl-activating enzyme (AAE) consensus motif; other site 930169009100 putative AMP binding site [chemical binding]; other site 930169009101 putative active site [active] 930169009102 putative CoA binding site [chemical binding]; other site 930169009103 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169009104 classical (c) SDRs; Region: SDR_c; cd05233 930169009105 NAD(P) binding site [chemical binding]; other site 930169009106 active site 930169009107 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 930169009108 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 930169009109 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169009110 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169009111 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169009112 DctM-like transporters; Region: DctM; pfam06808 930169009113 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169009114 Transcriptional regulators [Transcription]; Region: PurR; COG1609 930169009115 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 930169009116 DNA binding site [nucleotide binding] 930169009117 domain linker motif; other site 930169009118 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930169009119 putative acyltransferase; Provisional; Region: PRK05790 930169009120 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 930169009121 dimer interface [polypeptide binding]; other site 930169009122 active site 930169009123 transcriptional regulator HdfR; Provisional; Region: PRK03601 930169009124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169009125 LysR substrate binding domain; Region: LysR_substrate; pfam03466 930169009126 dimerization interface [polypeptide binding]; other site 930169009127 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 930169009128 Flavodoxin; Region: Flavodoxin_1; pfam00258 930169009129 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 930169009130 FAD binding pocket [chemical binding]; other site 930169009131 conserved FAD binding motif [chemical binding]; other site 930169009132 phosphate binding motif [ion binding]; other site 930169009133 beta-alpha-beta structure motif; other site 930169009134 NAD binding pocket [chemical binding]; other site 930169009135 sulfite reductase subunit beta; Provisional; Region: PRK13504 930169009136 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 930169009137 DsrE/DsrF-like family; Region: DrsE; cl00672 930169009138 DsrH like protein; Region: DsrH; cl17347 930169009139 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 930169009140 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 930169009141 FMN binding site [chemical binding]; other site 930169009142 substrate binding site [chemical binding]; other site 930169009143 putative catalytic residue [active] 930169009144 Uncharacterized conserved protein [Function unknown]; Region: COG3189 930169009145 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 930169009146 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 930169009147 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 930169009148 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 930169009149 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 930169009150 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 930169009151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169009152 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 930169009153 Walker A/P-loop; other site 930169009154 ATP binding site [chemical binding]; other site 930169009155 Q-loop/lid; other site 930169009156 ABC transporter signature motif; other site 930169009157 Walker B; other site 930169009158 D-loop; other site 930169009159 H-loop/switch region; other site 930169009160 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 930169009161 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 930169009162 Walker A/P-loop; other site 930169009163 ATP binding site [chemical binding]; other site 930169009164 Q-loop/lid; other site 930169009165 ABC transporter signature motif; other site 930169009166 Walker B; other site 930169009167 D-loop; other site 930169009168 H-loop/switch region; other site 930169009169 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 930169009170 Peptidase family U32; Region: Peptidase_U32; pfam01136 930169009171 putative protease; Provisional; Region: PRK15447 930169009172 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 930169009173 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 930169009174 Class III ribonucleotide reductase; Region: RNR_III; cd01675 930169009175 effector binding site; other site 930169009176 active site 930169009177 Zn binding site [ion binding]; other site 930169009178 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 930169009179 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 930169009180 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 930169009181 FeS/SAM binding site; other site 930169009182 SCP-2 sterol transfer family; Region: SCP2; cl01225 930169009183 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 930169009184 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 930169009185 putative substrate translocation pore; other site 930169009186 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 930169009187 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 930169009188 putative substrate translocation pore; other site 930169009189 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 930169009190 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 930169009191 [4Fe-4S] binding site [ion binding]; other site 930169009192 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 930169009193 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 930169009194 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 930169009195 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 930169009196 molybdopterin cofactor binding site; other site 930169009197 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 930169009198 4Fe-4S binding domain; Region: Fer4; cl02805 930169009199 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 930169009200 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 930169009201 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 930169009202 DGC domain; Region: DGC; pfam08859 930169009203 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169009204 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 930169009205 ligand binding site [chemical binding]; other site 930169009206 flexible hinge region; other site 930169009207 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 930169009208 non-specific DNA interactions [nucleotide binding]; other site 930169009209 DNA binding site [nucleotide binding] 930169009210 sequence specific DNA binding site [nucleotide binding]; other site 930169009211 putative cAMP binding site [chemical binding]; other site 930169009212 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 930169009213 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930169009214 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 930169009215 Transcriptional regulator; Region: Rrf2; cl17282 930169009216 Predicted transcriptional regulator [Transcription]; Region: COG1959 930169009217 Transcriptional regulator; Region: Rrf2; cl17282 930169009218 Predicted transcriptional regulator [Transcription]; Region: COG1959 930169009219 NnrS protein; Region: NnrS; pfam05940 930169009220 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 930169009221 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 930169009222 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 930169009223 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930169009224 dimer interface [polypeptide binding]; other site 930169009225 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 930169009226 dimerization interface [polypeptide binding]; other site 930169009227 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169009228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169009229 dimer interface [polypeptide binding]; other site 930169009230 putative CheW interface [polypeptide binding]; other site 930169009231 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 930169009232 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 930169009233 Predicted transcriptional regulator [Transcription]; Region: COG2378 930169009234 WYL domain; Region: WYL; pfam13280 930169009235 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 930169009236 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 930169009237 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930169009238 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 930169009239 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 930169009240 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 930169009241 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 930169009242 putative ligand binding site [chemical binding]; other site 930169009243 putative NAD binding site [chemical binding]; other site 930169009244 catalytic site [active] 930169009245 outer membrane porin, OprD family; Region: OprD; pfam03573 930169009246 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 930169009247 Citrate transporter; Region: CitMHS; pfam03600 930169009248 Helix-turn-helix domain; Region: HTH_17; pfam12728 930169009249 Citrate synthase (CS), 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. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 930169009250 Citrate synthase; Region: Citrate_synt; pfam00285 930169009251 oxalacetate binding site [chemical binding]; other site 930169009252 citrylCoA binding site [chemical binding]; other site 930169009253 coenzyme A binding site [chemical binding]; other site 930169009254 catalytic triad [active] 930169009255 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 930169009256 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 930169009257 substrate binding site [chemical binding]; other site 930169009258 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 930169009259 substrate binding site [chemical binding]; other site 930169009260 ligand binding site [chemical binding]; other site 930169009261 Secretory lipase; Region: LIP; pfam03583 930169009262 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 930169009263 Putative ammonia monooxygenase; Region: AmoA; pfam05145 930169009264 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 930169009265 carbon storage regulator; Provisional; Region: PRK01712 930169009266 aspartate kinase; Reviewed; Region: PRK06635 930169009267 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 930169009268 putative nucleotide binding site [chemical binding]; other site 930169009269 putative catalytic residues [active] 930169009270 putative Mg ion binding site [ion binding]; other site 930169009271 putative aspartate binding site [chemical binding]; other site 930169009272 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 930169009273 putative allosteric regulatory site; other site 930169009274 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 930169009275 putative allosteric regulatory residue; other site 930169009276 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 930169009277 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 930169009278 motif 1; other site 930169009279 active site 930169009280 motif 2; other site 930169009281 motif 3; other site 930169009282 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 930169009283 DHHA1 domain; Region: DHHA1; pfam02272 930169009284 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930169009285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930169009286 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930169009287 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930169009288 recombination regulator RecX; Reviewed; Region: recX; PRK00117 930169009289 recombinase A; Provisional; Region: recA; PRK09354 930169009290 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 930169009291 hexamer interface [polypeptide binding]; other site 930169009292 Walker A motif; other site 930169009293 ATP binding site [chemical binding]; other site 930169009294 Walker B motif; other site 930169009295 Competence-damaged protein; Region: CinA; pfam02464 930169009296 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 930169009297 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 930169009298 active site 930169009299 putative substrate binding pocket [chemical binding]; other site 930169009300 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 930169009301 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 930169009302 N-terminal plug; other site 930169009303 ligand-binding site [chemical binding]; other site 930169009304 Protein of unknown function DUF91; Region: DUF91; cl00709 930169009305 Uncharacterized conserved protein [Function unknown]; Region: COG3586 930169009306 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 930169009307 HsdM N-terminal domain; Region: HsdM_N; pfam12161 930169009308 Methyltransferase domain; Region: Methyltransf_26; pfam13659 930169009309 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 930169009310 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 930169009311 AAA domain; Region: AAA_17; pfam13207 930169009312 AAA domain; Region: AAA_18; pfam13238 930169009313 Uncharacterized conserved protein [Function unknown]; Region: COG4933 930169009314 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 930169009315 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 930169009316 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 930169009317 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 930169009318 ATP binding site [chemical binding]; other site 930169009319 putative Mg++ binding site [ion binding]; other site 930169009320 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 930169009321 Predicted transcriptional regulator [Transcription]; Region: COG2378 930169009322 WYL domain; Region: WYL; pfam13280 930169009323 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 930169009324 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 930169009325 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 930169009326 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 930169009327 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169009328 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169009329 fec operon regulator FecR; Reviewed; Region: PRK09774 930169009330 FecR protein; Region: FecR; pfam04773 930169009331 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169009332 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 930169009333 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 930169009334 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 930169009335 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 930169009336 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 930169009337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169009338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169009339 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169009340 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 930169009341 putative NAD(P) binding site [chemical binding]; other site 930169009342 putative dimer interface [polypeptide binding]; other site 930169009343 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 930169009344 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 930169009345 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 930169009346 substrate binding site [chemical binding]; other site 930169009347 oxyanion hole (OAH) forming residues; other site 930169009348 trimer interface [polypeptide binding]; other site 930169009349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169009350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169009351 AMP-binding domain protein; Validated; Region: PRK07529 930169009352 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169009353 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169009354 acyl-activating enzyme (AAE) consensus motif; other site 930169009355 acyl-activating enzyme (AAE) consensus motif; other site 930169009356 AMP binding site [chemical binding]; other site 930169009357 active site 930169009358 CoA binding site [chemical binding]; other site 930169009359 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 930169009360 MutS domain I; Region: MutS_I; pfam01624 930169009361 MutS domain II; Region: MutS_II; pfam05188 930169009362 MutS domain III; Region: MutS_III; pfam05192 930169009363 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 930169009364 Walker A/P-loop; other site 930169009365 ATP binding site [chemical binding]; other site 930169009366 Q-loop/lid; other site 930169009367 ABC transporter signature motif; other site 930169009368 Walker B; other site 930169009369 D-loop; other site 930169009370 H-loop/switch region; other site 930169009371 Ferredoxin [Energy production and conversion]; Region: COG1146 930169009372 4Fe-4S binding domain; Region: Fer4; pfam00037 930169009373 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 930169009374 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 930169009375 putative binding surface; other site 930169009376 active site 930169009377 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 930169009378 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 930169009379 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 930169009380 Probable Catalytic site; other site 930169009381 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 930169009382 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 930169009383 FeS/SAM binding site; other site 930169009384 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 930169009385 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 930169009386 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 930169009387 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 930169009388 putative active site [active] 930169009389 catalytic site [active] 930169009390 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 930169009391 putative active site [active] 930169009392 catalytic site [active] 930169009393 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 930169009394 FeS/SAM binding site; other site 930169009395 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 930169009396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169009397 DNA-binding site [nucleotide binding]; DNA binding site 930169009398 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 930169009399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169009400 homodimer interface [polypeptide binding]; other site 930169009401 catalytic residue [active] 930169009402 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930169009403 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 930169009404 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 930169009405 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 930169009406 Part of AAA domain; Region: AAA_19; pfam13245 930169009407 Family description; Region: UvrD_C_2; pfam13538 930169009408 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 930169009409 AAA domain; Region: AAA_30; pfam13604 930169009410 Family description; Region: UvrD_C_2; pfam13538 930169009411 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169009412 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930169009413 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169009414 ligand binding site [chemical binding]; other site 930169009415 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 930169009416 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 930169009417 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 930169009418 integrase; Provisional; Region: PRK09692 930169009419 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 930169009420 active site 930169009421 Int/Topo IB signature motif; other site 930169009422 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 930169009423 WYL domain; Region: WYL; pfam13280 930169009424 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 930169009425 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 930169009426 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169009427 FecR protein; Region: FecR; pfam04773 930169009428 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 930169009429 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169009430 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169009431 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169009432 Gram-negative bacterial tonB protein; Region: TonB; cl10048 930169009433 Gram-negative bacterial tonB protein; Region: TonB; cl10048 930169009434 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930169009435 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 930169009436 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 930169009437 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169009438 FecR protein; Region: FecR; pfam04773 930169009439 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 930169009440 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169009441 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169009442 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169009443 Gram-negative bacterial tonB protein; Region: TonB; cl10048 930169009444 Transposase; Region: HTH_Tnp_1; cl17663 930169009445 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169009446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169009447 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169009448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169009449 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169009450 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169009451 Transposase domain (DUF772); Region: DUF772; pfam05598 930169009452 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 930169009453 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 930169009454 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 930169009455 RHS Repeat; Region: RHS_repeat; pfam05593 930169009456 RHS Repeat; Region: RHS_repeat; pfam05593 930169009457 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 930169009458 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 930169009459 active site 930169009460 RHS Repeat; Region: RHS_repeat; pfam05593 930169009461 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 930169009462 MPN+ (JAMM) motif; other site 930169009463 Zinc-binding site [ion binding]; other site 930169009464 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 930169009465 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 930169009466 transcriptional repressor DicA; Reviewed; Region: PRK09706 930169009467 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 930169009468 sequence-specific DNA binding site [nucleotide binding]; other site 930169009469 salt bridge; other site 930169009470 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 930169009471 REJ domain; Region: REJ; pfam02010 930169009472 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 930169009473 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 930169009474 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 930169009475 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 930169009476 DNA binding residues [nucleotide binding] 930169009477 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 930169009478 IHF dimer interface [polypeptide binding]; other site 930169009479 IHF - DNA interface [nucleotide binding]; other site 930169009480 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 930169009481 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 930169009482 putative tRNA-binding site [nucleotide binding]; other site 930169009483 B3/4 domain; Region: B3_4; pfam03483 930169009484 tRNA synthetase B5 domain; Region: B5; smart00874 930169009485 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 930169009486 dimer interface [polypeptide binding]; other site 930169009487 motif 1; other site 930169009488 motif 3; other site 930169009489 motif 2; other site 930169009490 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 930169009491 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 930169009492 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 930169009493 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 930169009494 dimer interface [polypeptide binding]; other site 930169009495 motif 1; other site 930169009496 active site 930169009497 motif 2; other site 930169009498 motif 3; other site 930169009499 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 930169009500 23S rRNA binding site [nucleotide binding]; other site 930169009501 L21 binding site [polypeptide binding]; other site 930169009502 L13 binding site [polypeptide binding]; other site 930169009503 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 930169009504 translation initiation factor IF-3; Region: infC; TIGR00168 930169009505 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 930169009506 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 930169009507 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 930169009508 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 930169009509 putative substrate translocation pore; other site 930169009510 LysR family transcriptional regulator; Provisional; Region: PRK14997 930169009511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169009512 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_7; cd08476 930169009513 putative effector binding pocket; other site 930169009514 putative dimerization interface [polypeptide binding]; other site 930169009515 Predicted membrane protein [Function unknown]; Region: COG3174 930169009516 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 930169009517 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169009518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 930169009519 FCD domain; Region: FCD; pfam07729 930169009520 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 930169009521 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 930169009522 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 930169009523 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 930169009524 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 930169009525 ATP binding site [chemical binding]; other site 930169009526 active site 930169009527 substrate binding site [chemical binding]; other site 930169009528 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 930169009529 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 930169009530 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 930169009531 dihydrodipicolinate synthase; Region: dapA; TIGR00674 930169009532 dimer interface [polypeptide binding]; other site 930169009533 active site 930169009534 catalytic residue [active] 930169009535 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 930169009536 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 930169009537 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 930169009538 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 930169009539 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 930169009540 catalytic triad [active] 930169009541 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 930169009542 Domain of unknown function DUF20; Region: UPF0118; pfam01594 930169009543 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 930169009544 CPxP motif; other site 930169009545 Peptidase family M48; Region: Peptidase_M48; cl12018 930169009546 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 930169009547 binding surface 930169009548 Tetratricopeptide repeat; Region: TPR_16; pfam13432 930169009549 TPR motif; other site 930169009550 quinolinate synthetase; Provisional; Region: PRK09375 930169009551 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 930169009552 Ligand Binding Site [chemical binding]; other site 930169009553 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 930169009554 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 930169009555 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 930169009556 Tetratricopeptide repeat; Region: TPR_6; pfam13174 930169009557 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169009558 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 930169009559 ligand binding site [chemical binding]; other site 930169009560 translocation protein TolB; Provisional; Region: tolB; PRK00178 930169009561 TolB amino-terminal domain; Region: TolB_N; pfam04052 930169009562 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930169009563 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930169009564 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930169009565 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 930169009566 TolA protein; Region: tolA_full; TIGR02794 930169009567 TonB C terminal; Region: TonB_2; pfam13103 930169009568 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 930169009569 TolR protein; Region: tolR; TIGR02801 930169009570 TolQ protein; Region: tolQ; TIGR02796 930169009571 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 930169009572 active site 930169009573 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 930169009574 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 930169009575 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 930169009576 Walker A motif; other site 930169009577 ATP binding site [chemical binding]; other site 930169009578 Walker B motif; other site 930169009579 arginine finger; other site 930169009580 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 930169009581 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 930169009582 RuvA N terminal domain; Region: RuvA_N; pfam01330 930169009583 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 930169009584 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 930169009585 active site 930169009586 putative DNA-binding cleft [nucleotide binding]; other site 930169009587 dimer interface [polypeptide binding]; other site 930169009588 hypothetical protein; Validated; Region: PRK00110 930169009589 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 930169009590 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 930169009591 dimer interface [polypeptide binding]; other site 930169009592 anticodon binding site; other site 930169009593 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 930169009594 homodimer interface [polypeptide binding]; other site 930169009595 motif 1; other site 930169009596 active site 930169009597 motif 2; other site 930169009598 GAD domain; Region: GAD; pfam02938 930169009599 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 930169009600 motif 3; other site 930169009601 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 930169009602 IHF dimer interface [polypeptide binding]; other site 930169009603 IHF - DNA interface [nucleotide binding]; other site 930169009604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169009605 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 930169009606 ATP binding site [chemical binding]; other site 930169009607 Mg2+ binding site [ion binding]; other site 930169009608 G-X-G motif; other site 930169009609 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 930169009610 active site 930169009611 phosphorylation site [posttranslational modification] 930169009612 intermolecular recognition site; other site 930169009613 dimerization interface [polypeptide binding]; other site 930169009614 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169009615 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 930169009616 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 930169009617 Surface antigen; Region: Bac_surface_Ag; pfam01103 930169009618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 930169009619 Family of unknown function (DUF490); Region: DUF490; pfam04357 930169009620 Family of unknown function (DUF490); Region: DUF490; pfam04357 930169009621 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 930169009622 CoenzymeA binding site [chemical binding]; other site 930169009623 subunit interaction site [polypeptide binding]; other site 930169009624 PHB binding site; other site 930169009625 prolyl-tRNA synthetase; Provisional; Region: PRK09194 930169009626 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 930169009627 dimer interface [polypeptide binding]; other site 930169009628 motif 1; other site 930169009629 active site 930169009630 motif 2; other site 930169009631 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 930169009632 putative deacylase active site [active] 930169009633 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 930169009634 active site 930169009635 motif 3; other site 930169009636 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 930169009637 anticodon binding site; other site 930169009638 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 930169009639 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 930169009640 P-loop; other site 930169009641 Magnesium ion binding site [ion binding]; other site 930169009642 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 930169009643 Magnesium ion binding site [ion binding]; other site 930169009644 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 930169009645 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169009646 active site 930169009647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169009648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169009649 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 930169009650 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 930169009651 Chromate transporter; Region: Chromate_transp; pfam02417 930169009652 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 930169009653 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 930169009654 ATP binding site [chemical binding]; other site 930169009655 putative Mg++ binding site [ion binding]; other site 930169009656 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 930169009657 nucleotide binding region [chemical binding]; other site 930169009658 ATP-binding site [chemical binding]; other site 930169009659 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 930169009660 HRDC domain; Region: HRDC; pfam00570 930169009661 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169009662 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 930169009663 active site 930169009664 metal binding site [ion binding]; metal-binding site 930169009665 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 930169009666 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 930169009667 ATP binding site [chemical binding]; other site 930169009668 Mg++ binding site [ion binding]; other site 930169009669 motif III; other site 930169009670 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 930169009671 nucleotide binding region [chemical binding]; other site 930169009672 ATP-binding site [chemical binding]; other site 930169009673 short chain dehydrogenase; Provisional; Region: PRK12937 930169009674 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 930169009675 NADP binding site [chemical binding]; other site 930169009676 homodimer interface [polypeptide binding]; other site 930169009677 active site 930169009678 substrate binding site [chemical binding]; other site 930169009679 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 930169009680 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169009681 acyl-activating enzyme (AAE) consensus motif; other site 930169009682 AMP binding site [chemical binding]; other site 930169009683 active site 930169009684 CoA binding site [chemical binding]; other site 930169009685 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 930169009686 active site 930169009687 catalytic residue [active] 930169009688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169009689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169009690 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 930169009691 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 930169009692 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 930169009693 Uncharacterized conserved protein [Function unknown]; Region: COG4850 930169009694 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 930169009695 Predicted deacylase [General function prediction only]; Region: COG3608 930169009696 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 930169009697 putative active site [active] 930169009698 Zn binding site [ion binding]; other site 930169009699 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 930169009700 RimK-like ATP-grasp domain; Region: RimK; pfam08443 930169009701 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 930169009702 argininosuccinate synthase; Provisional; Region: PRK13820 930169009703 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 930169009704 ANP binding site [chemical binding]; other site 930169009705 Substrate Binding Site II [chemical binding]; other site 930169009706 Substrate Binding Site I [chemical binding]; other site 930169009707 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 930169009708 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 930169009709 dimer interface [polypeptide binding]; other site 930169009710 catalytic site [active] 930169009711 putative active site [active] 930169009712 putative substrate binding site [chemical binding]; other site 930169009713 peroxidase; Provisional; Region: PRK15000 930169009714 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 930169009715 dimer interface [polypeptide binding]; other site 930169009716 decamer (pentamer of dimers) interface [polypeptide binding]; other site 930169009717 catalytic triad [active] 930169009718 peroxidatic and resolving cysteines [active] 930169009719 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 930169009720 putative GSH binding site [chemical binding]; other site 930169009721 catalytic residues [active] 930169009722 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 930169009723 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 930169009724 N-terminal plug; other site 930169009725 ligand-binding site [chemical binding]; other site 930169009726 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 930169009727 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 930169009728 acetylornithine aminotransferase; Provisional; Region: PRK02627 930169009729 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 930169009730 inhibitor-cofactor binding pocket; inhibition site 930169009731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169009732 catalytic residue [active] 930169009733 ornithine carbamoyltransferase; Provisional; Region: PRK00779 930169009734 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 930169009735 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 930169009736 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 930169009737 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 930169009738 Walker A/P-loop; other site 930169009739 ATP binding site [chemical binding]; other site 930169009740 Q-loop/lid; other site 930169009741 ABC transporter signature motif; other site 930169009742 Walker B; other site 930169009743 D-loop; other site 930169009744 H-loop/switch region; other site 930169009745 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169009746 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169009747 metal binding site [ion binding]; metal-binding site 930169009748 active site 930169009749 I-site; other site 930169009750 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169009751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169009752 metal binding site [ion binding]; metal-binding site 930169009753 active site 930169009754 I-site; other site 930169009755 glycerol kinase; Provisional; Region: glpK; PRK00047 930169009756 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 930169009757 N- and C-terminal domain interface [polypeptide binding]; other site 930169009758 active site 930169009759 MgATP binding site [chemical binding]; other site 930169009760 catalytic site [active] 930169009761 metal binding site [ion binding]; metal-binding site 930169009762 glycerol binding site [chemical binding]; other site 930169009763 homotetramer interface [polypeptide binding]; other site 930169009764 homodimer interface [polypeptide binding]; other site 930169009765 FBP binding site [chemical binding]; other site 930169009766 protein IIAGlc interface [polypeptide binding]; other site 930169009767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169009768 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 930169009769 dimerization interface [polypeptide binding]; other site 930169009770 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 930169009771 dimer interface [polypeptide binding]; other site 930169009772 phosphorylation site [posttranslational modification] 930169009773 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 930169009774 ATP binding site [chemical binding]; other site 930169009775 Mg2+ binding site [ion binding]; other site 930169009776 G-X-G motif; other site 930169009777 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 930169009778 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 930169009779 active site 930169009780 phosphorylation site [posttranslational modification] 930169009781 intermolecular recognition site; other site 930169009782 dimerization interface [polypeptide binding]; other site 930169009783 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 930169009784 DNA binding site [nucleotide binding] 930169009785 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 930169009786 ATP cone domain; Region: ATP-cone; pfam03477 930169009787 ATP cone domain; Region: ATP-cone; pfam03477 930169009788 Class I ribonucleotide reductase; Region: RNR_I; cd01679 930169009789 active site 930169009790 dimer interface [polypeptide binding]; other site 930169009791 catalytic residues [active] 930169009792 effector binding site; other site 930169009793 R2 peptide binding site; other site 930169009794 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 930169009795 dimer interface [polypeptide binding]; other site 930169009796 putative radical transfer pathway; other site 930169009797 diiron center [ion binding]; other site 930169009798 tyrosyl radical; other site 930169009799 acetolactate synthase; Reviewed; Region: PRK08322 930169009800 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930169009801 PYR/PP interface [polypeptide binding]; other site 930169009802 dimer interface [polypeptide binding]; other site 930169009803 TPP binding site [chemical binding]; other site 930169009804 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930169009805 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 930169009806 TPP-binding site [chemical binding]; other site 930169009807 dimer interface [polypeptide binding]; other site 930169009808 DinB family; Region: DinB; cl17821 930169009809 DinB superfamily; Region: DinB_2; pfam12867 930169009810 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 930169009811 putative cation:proton antiport protein; Provisional; Region: PRK10669 930169009812 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 930169009813 TrkA-N domain; Region: TrkA_N; pfam02254 930169009814 TrkA-C domain; Region: TrkA_C; pfam02080 930169009815 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169009816 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169009817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169009818 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 930169009819 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 930169009820 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 930169009821 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 930169009822 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 930169009823 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169009824 DctM-like transporters; Region: DctM; pfam06808 930169009825 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169009826 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169009827 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169009828 phenol 2-monooxygenase; Provisional; Region: PRK08294 930169009829 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169009830 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 930169009831 dimer interface [polypeptide binding]; other site 930169009832 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 930169009833 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169009834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169009835 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 930169009836 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 930169009837 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 930169009838 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 930169009839 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 930169009840 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 930169009841 NAD binding site [chemical binding]; other site 930169009842 catalytic residues [active] 930169009843 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 930169009844 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 930169009845 putative active site [active] 930169009846 putative metal binding site [ion binding]; other site 930169009847 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 930169009848 putative substrate binding pocket [chemical binding]; other site 930169009849 trimer interface [polypeptide binding]; other site 930169009850 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 930169009851 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 930169009852 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 930169009853 MarR family; Region: MarR_2; cl17246 930169009854 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169009855 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169009856 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 930169009857 putative ligand binding site [chemical binding]; other site 930169009858 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 930169009859 aconitate hydratase; Validated; Region: PRK09277 930169009860 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 930169009861 substrate binding site [chemical binding]; other site 930169009862 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 930169009863 ligand binding site [chemical binding]; other site 930169009864 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 930169009865 substrate binding site [chemical binding]; other site 930169009866 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930169009867 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 930169009868 dimer interface [polypeptide binding]; other site 930169009869 conserved gate region; other site 930169009870 putative PBP binding loops; other site 930169009871 ABC-ATPase subunit interface; other site 930169009872 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 930169009873 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 930169009874 dimer interface [polypeptide binding]; other site 930169009875 conserved gate region; other site 930169009876 putative PBP binding loops; other site 930169009877 ABC-ATPase subunit interface; other site 930169009878 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 930169009879 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169009880 Walker A/P-loop; other site 930169009881 ATP binding site [chemical binding]; other site 930169009882 Q-loop/lid; other site 930169009883 ABC transporter signature motif; other site 930169009884 Walker B; other site 930169009885 D-loop; other site 930169009886 H-loop/switch region; other site 930169009887 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169009888 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 930169009889 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169009890 Walker A/P-loop; other site 930169009891 ATP binding site [chemical binding]; other site 930169009892 Q-loop/lid; other site 930169009893 ABC transporter signature motif; other site 930169009894 Walker B; other site 930169009895 D-loop; other site 930169009896 H-loop/switch region; other site 930169009897 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169009898 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; cd00995 930169009899 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 930169009900 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 930169009901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169009902 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 930169009903 putative dimerization interface [polypeptide binding]; other site 930169009904 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 930169009905 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 930169009906 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169009907 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 930169009908 putative metal binding site [ion binding]; other site 930169009909 Uncharacterized conserved protein [Function unknown]; Region: COG1432 930169009910 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 930169009911 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169009912 DctM-like transporters; Region: DctM; pfam06808 930169009913 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169009914 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169009915 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169009916 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 930169009917 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 930169009918 Rhomboid family; Region: Rhomboid; pfam01694 930169009919 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 930169009920 elongation factor P; Provisional; Region: PRK04542 930169009921 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 930169009922 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 930169009923 RNA binding site [nucleotide binding]; other site 930169009924 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 930169009925 RNA binding site [nucleotide binding]; other site 930169009926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 930169009927 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 930169009928 putative acyl-acceptor binding pocket; other site 930169009929 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 930169009930 NMT1/THI5 like; Region: NMT1; pfam09084 930169009931 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 930169009932 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 930169009933 active site 930169009934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169009935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169009936 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 930169009937 dimerization interface [polypeptide binding]; other site 930169009938 Isochorismatase family; Region: Isochorismatase; pfam00857 930169009939 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930169009940 catalytic triad [active] 930169009941 conserved cis-peptide bond; other site 930169009942 NMT1/THI5 like; Region: NMT1; pfam09084 930169009943 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 930169009944 substrate binding pocket [chemical binding]; other site 930169009945 membrane-bound complex binding site; other site 930169009946 hinge residues; other site 930169009947 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169009948 classical (c) SDRs; Region: SDR_c; cd05233 930169009949 NAD(P) binding site [chemical binding]; other site 930169009950 active site 930169009951 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 930169009952 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 930169009953 active site 930169009954 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169009955 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169009956 Walker A/P-loop; other site 930169009957 ATP binding site [chemical binding]; other site 930169009958 Q-loop/lid; other site 930169009959 ABC transporter signature motif; other site 930169009960 Walker B; other site 930169009961 D-loop; other site 930169009962 H-loop/switch region; other site 930169009963 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169009964 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 930169009965 dimer interface [polypeptide binding]; other site 930169009966 conserved gate region; other site 930169009967 putative PBP binding loops; other site 930169009968 ABC-ATPase subunit interface; other site 930169009969 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 930169009970 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 930169009971 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 930169009972 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 930169009973 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 930169009974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169009975 metal binding site [ion binding]; metal-binding site 930169009976 I-site; other site 930169009977 active site 930169009978 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 930169009979 cleavage site 930169009980 active site 930169009981 substrate binding sites [chemical binding]; other site 930169009982 hypothetical protein; Provisional; Region: PRK06184 930169009983 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169009984 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 930169009985 active site 930169009986 DNA polymerase IV; Validated; Region: PRK02406 930169009987 DNA binding site [nucleotide binding] 930169009988 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 930169009989 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 930169009990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930169009991 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 930169009992 NAD binding site [chemical binding]; other site 930169009993 homodimer interface [polypeptide binding]; other site 930169009994 homotetramer interface [polypeptide binding]; other site 930169009995 active site 930169009996 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 930169009997 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 930169009998 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 930169009999 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 930169010000 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 930169010001 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 930169010002 active site 930169010003 Predicted Fe-S protein [General function prediction only]; Region: COG3313 930169010004 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 930169010005 LysE type translocator; Region: LysE; cl00565 930169010006 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169010007 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169010008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169010009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169010010 Putative cyclase; Region: Cyclase; pfam04199 930169010011 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 930169010012 metal binding site 2 [ion binding]; metal-binding site 930169010013 putative DNA binding helix; other site 930169010014 metal binding site 1 [ion binding]; metal-binding site 930169010015 dimer interface [polypeptide binding]; other site 930169010016 structural Zn2+ binding site [ion binding]; other site 930169010017 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 930169010018 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 930169010019 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 930169010020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169010021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169010022 active site 930169010023 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169010024 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 930169010025 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 930169010026 dimerization interface [polypeptide binding]; other site 930169010027 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 930169010028 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 930169010029 putative substrate translocation pore; other site 930169010030 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 930169010031 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 930169010032 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169010033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169010034 LysR family transcriptional regulator; Provisional; Region: PRK14997 930169010035 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 930169010036 putative effector binding pocket; other site 930169010037 dimerization interface [polypeptide binding]; other site 930169010038 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169010039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169010040 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 930169010041 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 930169010042 active site 930169010043 metal binding site [ion binding]; metal-binding site 930169010044 MltA-interacting protein MipA; Region: MipA; cl01504 930169010045 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169010046 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169010047 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 930169010048 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 930169010049 N-terminal plug; other site 930169010050 ligand-binding site [chemical binding]; other site 930169010051 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169010052 FecR protein; Region: FecR; pfam04773 930169010053 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 930169010054 DNA binding residues [nucleotide binding] 930169010055 hypothetical protein; Provisional; Region: PRK11281 930169010056 superoxide dismutase; Provisional; Region: PRK10543 930169010057 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 930169010058 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 930169010059 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 930169010060 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 930169010061 dimer interface [polypeptide binding]; other site 930169010062 active site 930169010063 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 930169010064 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 930169010065 active site 930169010066 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 930169010067 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 930169010068 Trp docking motif [polypeptide binding]; other site 930169010069 putative active site [active] 930169010070 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 930169010071 putative active site [active] 930169010072 putative catalytic site [active] 930169010073 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 930169010074 PLD-like domain; Region: PLDc_2; pfam13091 930169010075 putative active site [active] 930169010076 putative catalytic site [active] 930169010077 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 930169010078 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 930169010079 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 930169010080 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 930169010081 FMN binding site [chemical binding]; other site 930169010082 substrate binding site [chemical binding]; other site 930169010083 putative catalytic residue [active] 930169010084 acyl-CoA synthetase; Validated; Region: PRK06188 930169010085 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169010086 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169010087 acyl-activating enzyme (AAE) consensus motif; other site 930169010088 acyl-activating enzyme (AAE) consensus motif; other site 930169010089 putative AMP binding site [chemical binding]; other site 930169010090 putative active site [active] 930169010091 putative CoA binding site [chemical binding]; other site 930169010092 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 930169010093 tetramer interface [polypeptide binding]; other site 930169010094 active site 930169010095 Mg2+/Mn2+ binding site [ion binding]; other site 930169010096 isocitrate lyase; Region: PLN02892 930169010097 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 930169010098 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 930169010099 G1 box; other site 930169010100 putative GEF interaction site [polypeptide binding]; other site 930169010101 GTP/Mg2+ binding site [chemical binding]; other site 930169010102 Switch I region; other site 930169010103 G2 box; other site 930169010104 G3 box; other site 930169010105 Switch II region; other site 930169010106 G4 box; other site 930169010107 G5 box; other site 930169010108 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 930169010109 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 930169010110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169010111 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 930169010112 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 930169010113 DNA binding residues [nucleotide binding] 930169010114 Flagellar protein FlhE; Region: FlhE; pfam06366 930169010115 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 930169010116 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 930169010117 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 930169010118 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 930169010119 FHIPEP family; Region: FHIPEP; pfam00771 930169010120 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 930169010121 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 930169010122 chemotaxis regulator CheZ; Provisional; Region: PRK11166 930169010123 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 930169010124 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 930169010125 active site 930169010126 phosphorylation site [posttranslational modification] 930169010127 intermolecular recognition site; other site 930169010128 dimerization interface [polypeptide binding]; other site 930169010129 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 930169010130 dimer interface [polypeptide binding]; other site 930169010131 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 930169010132 dimerization interface [polypeptide binding]; other site 930169010133 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169010134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169010135 dimer interface [polypeptide binding]; other site 930169010136 putative CheW interface [polypeptide binding]; other site 930169010137 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 930169010138 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 930169010139 active site 930169010140 phosphorylation site [posttranslational modification] 930169010141 intermolecular recognition site; other site 930169010142 dimerization interface [polypeptide binding]; other site 930169010143 CheB methylesterase; Region: CheB_methylest; pfam01339 930169010144 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 930169010145 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 930169010146 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 930169010147 S-adenosylmethionine binding site [chemical binding]; other site 930169010148 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 930169010149 PAS domain; Region: PAS_9; pfam13426 930169010150 putative active site [active] 930169010151 heme pocket [chemical binding]; other site 930169010152 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169010153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169010154 dimer interface [polypeptide binding]; other site 930169010155 putative CheW interface [polypeptide binding]; other site 930169010156 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 930169010157 dimerization interface [polypeptide binding]; other site 930169010158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169010159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169010160 dimer interface [polypeptide binding]; other site 930169010161 putative CheW interface [polypeptide binding]; other site 930169010162 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 930169010163 putative CheA interaction surface; other site 930169010164 chemotaxis protein CheA; Provisional; Region: PRK10547 930169010165 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 930169010166 putative binding surface; other site 930169010167 active site 930169010168 CheY binding; Region: CheY-binding; pfam09078 930169010169 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 930169010170 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 930169010171 ATP binding site [chemical binding]; other site 930169010172 Mg2+ binding site [ion binding]; other site 930169010173 G-X-G motif; other site 930169010174 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 930169010175 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 930169010176 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 930169010177 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 930169010178 ligand binding site [chemical binding]; other site 930169010179 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 930169010180 flagellar motor protein MotA; Validated; Region: PRK09110 930169010181 transcriptional activator FlhC; Provisional; Region: PRK12722 930169010182 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 930169010183 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 930169010184 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 930169010185 Flagellar protein FliT; Region: FliT; cl05125 930169010186 Flagellar protein FliS; Region: FliS; cl00654 930169010187 flagellar capping protein; Reviewed; Region: fliD; PRK08032 930169010188 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 930169010189 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 930169010190 flagellin; Validated; Region: PRK06819 930169010191 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930169010192 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 930169010193 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 930169010194 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 930169010195 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169010196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169010197 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 930169010198 dimerization interface [polypeptide binding]; other site 930169010199 FlaG protein; Region: FlaG; pfam03646 930169010200 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 930169010201 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 930169010202 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 930169010203 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 930169010204 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 930169010205 FliG C-terminal domain; Region: FliG_C; pfam01706 930169010206 flagellar assembly protein H; Validated; Region: fliH; PRK05687 930169010207 Flagellar assembly protein FliH; Region: FliH; pfam02108 930169010208 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 930169010209 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 930169010210 Walker A motif/ATP binding site; other site 930169010211 Walker B motif; other site 930169010212 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 930169010213 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 930169010214 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 930169010215 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 930169010216 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 930169010217 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 930169010218 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 930169010219 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 930169010220 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 930169010221 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 930169010222 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 930169010223 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 930169010224 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 930169010225 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930169010226 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930169010227 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 930169010228 Rod binding protein; Region: Rod-binding; cl01626 930169010229 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 930169010230 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 930169010231 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 930169010232 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 930169010233 Flagellar L-ring protein; Region: FlgH; pfam02107 930169010234 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 930169010235 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930169010236 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930169010237 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 930169010238 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930169010239 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 930169010240 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 930169010241 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930169010242 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 930169010243 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930169010244 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 930169010245 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 930169010246 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 930169010247 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 930169010248 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 930169010249 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 930169010250 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 930169010251 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 930169010252 SAF-like; Region: SAF_2; pfam13144 930169010253 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 930169010254 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 930169010255 FlgN protein; Region: FlgN; pfam05130 930169010256 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 930169010257 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 930169010258 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 930169010259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169010260 Coenzyme A binding pocket [chemical binding]; other site 930169010261 2-isopropylmalate synthase; Validated; Region: PRK00915 930169010262 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 930169010263 active site 930169010264 catalytic residues [active] 930169010265 metal binding site [ion binding]; metal-binding site 930169010266 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 930169010267 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 930169010268 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 930169010269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 930169010270 Transposase; Region: DEDD_Tnp_IS110; pfam01548 930169010271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 930169010272 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 930169010273 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 930169010274 ring oligomerisation interface [polypeptide binding]; other site 930169010275 ATP/Mg binding site [chemical binding]; other site 930169010276 stacking interactions; other site 930169010277 hinge regions; other site 930169010278 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 930169010279 oligomerisation interface [polypeptide binding]; other site 930169010280 mobile loop; other site 930169010281 roof hairpin; other site 930169010282 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 930169010283 DNA binding site [nucleotide binding] 930169010284 active site 930169010285 muropeptide transporter; Validated; Region: ampG; cl17669 930169010286 muropeptide transporter; Reviewed; Region: ampG; PRK11902 930169010287 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 930169010288 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 930169010289 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 930169010290 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 930169010291 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 930169010292 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 930169010293 dimerization interface [polypeptide binding]; other site 930169010294 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 930169010295 dimer interface [polypeptide binding]; other site 930169010296 phosphorylation site [posttranslational modification] 930169010297 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 930169010298 ATP binding site [chemical binding]; other site 930169010299 Mg2+ binding site [ion binding]; other site 930169010300 G-X-G motif; other site 930169010301 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 930169010302 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 930169010303 active site 930169010304 phosphorylation site [posttranslational modification] 930169010305 intermolecular recognition site; other site 930169010306 dimerization interface [polypeptide binding]; other site 930169010307 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 930169010308 DNA binding site [nucleotide binding] 930169010309 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 930169010310 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 930169010311 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 930169010312 E3 interaction surface; other site 930169010313 lipoyl attachment site [posttranslational modification]; other site 930169010314 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 930169010315 E3 interaction surface; other site 930169010316 lipoyl attachment site [posttranslational modification]; other site 930169010317 e3 binding domain; Region: E3_binding; pfam02817 930169010318 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 930169010319 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 930169010320 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 930169010321 dimer interface [polypeptide binding]; other site 930169010322 TPP-binding site [chemical binding]; other site 930169010323 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 930169010324 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 930169010325 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 930169010326 amidase catalytic site [active] 930169010327 Zn binding residues [ion binding]; other site 930169010328 substrate binding site [chemical binding]; other site 930169010329 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 930169010330 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 930169010331 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 930169010332 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 930169010333 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 930169010334 dimerization interface [polypeptide binding]; other site 930169010335 active site 930169010336 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 930169010337 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 930169010338 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169010339 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 930169010340 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 930169010341 HipA N-terminal domain; Region: Couple_hipA; cl11853 930169010342 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 930169010343 HipA-like N-terminal domain; Region: HipA_N; pfam07805 930169010344 HipA-like C-terminal domain; Region: HipA_C; pfam07804 930169010345 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 930169010346 non-specific DNA binding site [nucleotide binding]; other site 930169010347 salt bridge; other site 930169010348 sequence-specific DNA binding site [nucleotide binding]; other site 930169010349 Pilin (bacterial filament); Region: Pilin; pfam00114 930169010350 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 930169010351 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 930169010352 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 930169010353 Walker A motif; other site 930169010354 ATP binding site [chemical binding]; other site 930169010355 Walker B motif; other site 930169010356 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 930169010357 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930169010358 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 930169010359 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 930169010360 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 930169010361 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 930169010362 dephospho-CoA kinase; Region: TIGR00152 930169010363 CoA-binding site [chemical binding]; other site 930169010364 ATP-binding [chemical binding]; other site 930169010365 Domain of unknown function (DUF329); Region: DUF329; pfam03884 930169010366 hypothetical protein; Provisional; Region: PRK08999 930169010367 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 930169010368 active site 930169010369 8-oxo-dGMP binding site [chemical binding]; other site 930169010370 nudix motif; other site 930169010371 metal binding site [ion binding]; metal-binding site 930169010372 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 930169010373 thiamine phosphate binding site [chemical binding]; other site 930169010374 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 930169010375 heterotetramer interface [polypeptide binding]; other site 930169010376 active site pocket [active] 930169010377 cleavage site 930169010378 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 930169010379 DEAD/DEAH box helicase; Region: DEAD; pfam00270 930169010380 ATP binding site [chemical binding]; other site 930169010381 putative Mg++ binding site [ion binding]; other site 930169010382 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 930169010383 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 930169010384 nucleotide binding region [chemical binding]; other site 930169010385 ATP-binding site [chemical binding]; other site 930169010386 SEC-C motif; Region: SEC-C; pfam02810 930169010387 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 930169010388 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169010389 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 930169010390 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 930169010391 cell division protein FtsZ; Validated; Region: PRK09330 930169010392 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 930169010393 nucleotide binding site [chemical binding]; other site 930169010394 SulA interaction site; other site 930169010395 cell division protein FtsA; Region: ftsA; TIGR01174 930169010396 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 930169010397 nucleotide binding site [chemical binding]; other site 930169010398 Cell division protein FtsA; Region: FtsA; pfam14450 930169010399 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 930169010400 Cell division protein FtsQ; Region: FtsQ; pfam03799 930169010401 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 930169010402 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 930169010403 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 930169010404 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 930169010405 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930169010406 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169010407 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930169010408 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 930169010409 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 930169010410 active site 930169010411 homodimer interface [polypeptide binding]; other site 930169010412 cell division protein FtsW; Region: ftsW; TIGR02614 930169010413 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 930169010414 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169010415 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930169010416 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 930169010417 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 930169010418 Mg++ binding site [ion binding]; other site 930169010419 putative catalytic motif [active] 930169010420 putative substrate binding site [chemical binding]; other site 930169010421 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 930169010422 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930169010423 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169010424 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930169010425 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 930169010426 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 930169010427 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 930169010428 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 930169010429 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 930169010430 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 930169010431 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 930169010432 Cell division protein FtsL; Region: FtsL; pfam04999 930169010433 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 930169010434 MraW methylase family; Region: Methyltransf_5; cl17771 930169010435 cell division protein MraZ; Reviewed; Region: PRK00326 930169010436 MraZ protein; Region: MraZ; pfam02381 930169010437 MraZ protein; Region: MraZ; pfam02381 930169010438 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 930169010439 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169010440 Predicted methyltransferases [General function prediction only]; Region: COG0313 930169010441 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 930169010442 putative SAM binding site [chemical binding]; other site 930169010443 putative homodimer interface [polypeptide binding]; other site 930169010444 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 930169010445 putative ligand binding site [chemical binding]; other site 930169010446 hypothetical protein; Reviewed; Region: PRK12497 930169010447 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 930169010448 dimer interface [polypeptide binding]; other site 930169010449 active site 930169010450 outer membrane lipoprotein; Provisional; Region: PRK11023 930169010451 BON domain; Region: BON; pfam04972 930169010452 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 930169010453 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 930169010454 active site pocket [active] 930169010455 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 930169010456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169010457 DNA-binding site [nucleotide binding]; DNA binding site 930169010458 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 930169010459 choline dehydrogenase; Validated; Region: PRK02106 930169010460 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 930169010461 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169010462 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 930169010463 NAD(P) binding site [chemical binding]; other site 930169010464 catalytic residues [active] 930169010465 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169010466 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169010467 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169010468 DctM-like transporters; Region: DctM; pfam06808 930169010469 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169010470 acyl-CoA synthetase; Validated; Region: PRK06188 930169010471 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169010472 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169010473 acyl-activating enzyme (AAE) consensus motif; other site 930169010474 putative AMP binding site [chemical binding]; other site 930169010475 putative active site [active] 930169010476 putative CoA binding site [chemical binding]; other site 930169010477 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169010478 classical (c) SDRs; Region: SDR_c; cd05233 930169010479 NAD(P) binding site [chemical binding]; other site 930169010480 active site 930169010481 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 930169010482 putative substrate translocation pore; other site 930169010483 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169010484 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 930169010485 Sulfatase; Region: Sulfatase; pfam00884 930169010486 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 930169010487 stringent starvation protein A; Provisional; Region: sspA; PRK09481 930169010488 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 930169010489 C-terminal domain interface [polypeptide binding]; other site 930169010490 putative GSH binding site (G-site) [chemical binding]; other site 930169010491 dimer interface [polypeptide binding]; other site 930169010492 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 930169010493 dimer interface [polypeptide binding]; other site 930169010494 N-terminal domain interface [polypeptide binding]; other site 930169010495 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 930169010496 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 930169010497 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 930169010498 Qi binding site; other site 930169010499 intrachain domain interface; other site 930169010500 interchain domain interface [polypeptide binding]; other site 930169010501 heme bH binding site [chemical binding]; other site 930169010502 heme bL binding site [chemical binding]; other site 930169010503 Qo binding site; other site 930169010504 interchain domain interface [polypeptide binding]; other site 930169010505 intrachain domain interface; other site 930169010506 Qi binding site; other site 930169010507 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 930169010508 Qo binding site; other site 930169010509 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 930169010510 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 930169010511 [2Fe-2S] cluster binding site [ion binding]; other site 930169010512 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 930169010513 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 930169010514 23S rRNA interface [nucleotide binding]; other site 930169010515 L3 interface [polypeptide binding]; other site 930169010516 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 930169010517 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169010518 active site 930169010519 catalytic tetrad [active] 930169010520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169010521 WHG domain; Region: WHG; pfam13305 930169010522 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 930169010523 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 930169010524 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 930169010525 active site 930169010526 catalytic triad [active] 930169010527 oxyanion hole [active] 930169010528 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 930169010529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169010530 DNA-binding site [nucleotide binding]; DNA binding site 930169010531 FCD domain; Region: FCD; pfam07729 930169010532 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169010533 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 930169010534 putative ligand binding site [chemical binding]; other site 930169010535 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169010536 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 930169010537 TM-ABC transporter signature motif; other site 930169010538 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 930169010539 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169010540 TM-ABC transporter signature motif; other site 930169010541 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169010542 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169010543 Walker A/P-loop; other site 930169010544 ATP binding site [chemical binding]; other site 930169010545 Q-loop/lid; other site 930169010546 ABC transporter signature motif; other site 930169010547 Walker B; other site 930169010548 D-loop; other site 930169010549 H-loop/switch region; other site 930169010550 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169010551 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169010552 Walker A/P-loop; other site 930169010553 ATP binding site [chemical binding]; other site 930169010554 Q-loop/lid; other site 930169010555 ABC transporter signature motif; other site 930169010556 Walker B; other site 930169010557 D-loop; other site 930169010558 H-loop/switch region; other site 930169010559 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169010560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169010561 acyl-activating enzyme (AAE) consensus motif; other site 930169010562 AMP binding site [chemical binding]; other site 930169010563 active site 930169010564 CoA binding site [chemical binding]; other site 930169010565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169010566 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 930169010567 FAD binding site [chemical binding]; other site 930169010568 substrate binding site [chemical binding]; other site 930169010569 catalytic base [active] 930169010570 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 930169010571 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 930169010572 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 930169010573 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 930169010574 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 930169010575 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 930169010576 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 930169010577 Predicted transcriptional regulator [Transcription]; Region: COG2378 930169010578 HTH domain; Region: HTH_11; pfam08279 930169010579 WYL domain; Region: WYL; pfam13280 930169010580 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 930169010581 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 930169010582 HicB family; Region: HicB; pfam05534 930169010583 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 930169010584 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 930169010585 Predicted transcriptional regulator [Transcription]; Region: COG2944 930169010586 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 930169010587 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 930169010588 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169010589 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169010590 active site 930169010591 Predicted ATPase [General function prediction only]; Region: COG1485 930169010592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 930169010593 Walker A/P-loop; other site 930169010594 ATP binding site [chemical binding]; other site 930169010595 ABC transporter signature motif; other site 930169010596 Walker B; other site 930169010597 D-loop; other site 930169010598 H-loop/switch region; other site 930169010599 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 930169010600 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 930169010601 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 930169010602 ATP-sulfurylase; Region: ATPS; cd00517 930169010603 active site 930169010604 HXXH motif; other site 930169010605 flexible loop; other site 930169010606 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 930169010607 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 930169010608 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 930169010609 Uncharacterized conserved protein [Function unknown]; Region: COG0327 930169010610 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 930169010611 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 930169010612 protein binding site [polypeptide binding]; other site 930169010613 conserved hypothetical protein; Region: TIGR02231 930169010614 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 930169010615 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 930169010616 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 930169010617 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 930169010618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169010619 homodimer interface [polypeptide binding]; other site 930169010620 catalytic residue [active] 930169010621 histidinol dehydrogenase; Region: hisD; TIGR00069 930169010622 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 930169010623 NAD binding site [chemical binding]; other site 930169010624 dimerization interface [polypeptide binding]; other site 930169010625 product binding site; other site 930169010626 substrate binding site [chemical binding]; other site 930169010627 zinc binding site [ion binding]; other site 930169010628 catalytic residues [active] 930169010629 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 930169010630 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 930169010631 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 930169010632 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 930169010633 hinge; other site 930169010634 active site 930169010635 BolA-like protein; Region: BolA; pfam01722 930169010636 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 930169010637 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930169010638 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 930169010639 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 930169010640 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 930169010641 putative active site [active] 930169010642 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 930169010643 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 930169010644 active site 930169010645 motif I; other site 930169010646 motif II; other site 930169010647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 930169010648 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 930169010649 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 930169010650 OstA-like protein; Region: OstA; pfam03968 930169010651 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 930169010652 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 930169010653 Walker A/P-loop; other site 930169010654 ATP binding site [chemical binding]; other site 930169010655 Q-loop/lid; other site 930169010656 ABC transporter signature motif; other site 930169010657 Walker B; other site 930169010658 D-loop; other site 930169010659 H-loop/switch region; other site 930169010660 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 930169010661 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 930169010662 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 930169010663 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 930169010664 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 930169010665 30S subunit binding site; other site 930169010666 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 930169010667 active site 930169010668 phosphorylation site [posttranslational modification] 930169010669 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 930169010670 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 930169010671 dimerization domain swap beta strand [polypeptide binding]; other site 930169010672 regulatory protein interface [polypeptide binding]; other site 930169010673 active site 930169010674 regulatory phosphorylation site [posttranslational modification]; other site 930169010675 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 930169010676 HSP70 interaction site [polypeptide binding]; other site 930169010677 RDD family; Region: RDD; pfam06271 930169010678 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 930169010679 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 930169010680 nucleotide binding site [chemical binding]; other site 930169010681 putative NEF/HSP70 interaction site [polypeptide binding]; other site 930169010682 SBD interface [polypeptide binding]; other site 930169010683 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 930169010684 peptidase PmbA; Provisional; Region: PRK11040 930169010685 Protein of unknown function (DUF615); Region: DUF615; pfam04751 930169010686 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 930169010687 putative substrate translocation pore; other site 930169010688 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169010689 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 930169010690 ligand binding site [chemical binding]; other site 930169010691 flexible hinge region; other site 930169010692 protease TldD; Provisional; Region: tldD; PRK10735 930169010693 nitrilase; Region: PLN02798 930169010694 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 930169010695 putative active site [active] 930169010696 catalytic triad [active] 930169010697 dimer interface [polypeptide binding]; other site 930169010698 TIGR02099 family protein; Region: TIGR02099 930169010699 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 930169010700 Maf-like protein; Region: Maf; pfam02545 930169010701 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 930169010702 active site 930169010703 dimer interface [polypeptide binding]; other site 930169010704 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 930169010705 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 930169010706 rod shape-determining protein MreC; Region: MreC; pfam04085 930169010707 rod shape-determining protein MreB; Provisional; Region: PRK13927 930169010708 MreB and similar proteins; Region: MreB_like; cd10225 930169010709 nucleotide binding site [chemical binding]; other site 930169010710 Mg binding site [ion binding]; other site 930169010711 putative protofilament interaction site [polypeptide binding]; other site 930169010712 RodZ interaction site [polypeptide binding]; other site 930169010713 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 930169010714 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 930169010715 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 930169010716 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 930169010717 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 930169010718 GatB domain; Region: GatB_Yqey; smart00845 930169010719 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 930169010720 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 930169010721 Catalytic dyad [active] 930169010722 enoyl-CoA hydratase; Provisional; Region: PRK07509 930169010723 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 930169010724 substrate binding site [chemical binding]; other site 930169010725 oxyanion hole (OAH) forming residues; other site 930169010726 trimer interface [polypeptide binding]; other site 930169010727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169010728 PGAP1-like protein; Region: PGAP1; pfam07819 930169010729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 930169010730 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 930169010731 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 930169010732 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 930169010733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 930169010734 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 930169010735 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169010736 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 930169010737 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 930169010738 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 930169010739 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 930169010740 YrhK-like protein; Region: YrhK; pfam14145 930169010741 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 930169010742 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 930169010743 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 930169010744 ligand binding site [chemical binding]; other site 930169010745 flexible hinge region; other site 930169010746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169010747 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 930169010748 dimer interface [polypeptide binding]; other site 930169010749 phosphorylation site [posttranslational modification] 930169010750 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 930169010751 ATP binding site [chemical binding]; other site 930169010752 Mg2+ binding site [ion binding]; other site 930169010753 G-X-G motif; other site 930169010754 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 930169010755 Response regulator receiver domain; Region: Response_reg; pfam00072 930169010756 active site 930169010757 phosphorylation site [posttranslational modification] 930169010758 intermolecular recognition site; other site 930169010759 dimerization interface [polypeptide binding]; other site 930169010760 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169010761 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 930169010762 active site 930169010763 phosphorylation site [posttranslational modification] 930169010764 intermolecular recognition site; other site 930169010765 dimerization interface [polypeptide binding]; other site 930169010766 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 930169010767 DNA binding residues [nucleotide binding] 930169010768 dimerization interface [polypeptide binding]; other site 930169010769 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 930169010770 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 930169010771 ATP binding site [chemical binding]; other site 930169010772 substrate interface [chemical binding]; other site 930169010773 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 930169010774 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 930169010775 peptide chain release factor 1; Validated; Region: prfA; PRK00591 930169010776 This domain is found in peptide chain release factors; Region: PCRF; smart00937 930169010777 RF-1 domain; Region: RF-1; pfam00472 930169010778 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 930169010779 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 930169010780 tRNA; other site 930169010781 putative tRNA binding site [nucleotide binding]; other site 930169010782 putative NADP binding site [chemical binding]; other site 930169010783 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 930169010784 TPR repeat; Region: TPR_11; pfam13414 930169010785 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 930169010786 binding surface 930169010787 TPR motif; other site 930169010788 TPR repeat; Region: TPR_11; pfam13414 930169010789 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 930169010790 binding surface 930169010791 TPR motif; other site 930169010792 TPR repeat; Region: TPR_11; pfam13414 930169010793 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 930169010794 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 930169010795 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 930169010796 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 930169010797 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 930169010798 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169010799 active site 930169010800 putative transposase OrfB; Reviewed; Region: PHA02517 930169010801 Integrase core domain; Region: rve; pfam00665 930169010802 Integrase core domain; Region: rve_3; pfam13683 930169010803 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 930169010804 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 930169010805 5S rRNA interface [nucleotide binding]; other site 930169010806 CTC domain interface [polypeptide binding]; other site 930169010807 L16 interface [polypeptide binding]; other site 930169010808 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 930169010809 putative active site [active] 930169010810 catalytic residue [active] 930169010811 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169010812 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 930169010813 C-terminal domain interface [polypeptide binding]; other site 930169010814 GSH binding site (G-site) [chemical binding]; other site 930169010815 dimer interface [polypeptide binding]; other site 930169010816 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 930169010817 N-terminal domain interface [polypeptide binding]; other site 930169010818 GTP-binding protein YchF; Reviewed; Region: PRK09601 930169010819 YchF GTPase; Region: YchF; cd01900 930169010820 G1 box; other site 930169010821 GTP/Mg2+ binding site [chemical binding]; other site 930169010822 Switch I region; other site 930169010823 G2 box; other site 930169010824 Switch II region; other site 930169010825 G3 box; other site 930169010826 G4 box; other site 930169010827 G5 box; other site 930169010828 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 930169010829 AAA domain; Region: AAA_14; pfam13173 930169010830 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 930169010831 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 930169010832 metal-binding site 930169010833 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 930169010834 XdhC Rossmann domain; Region: XdhC_C; pfam13478 930169010835 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 930169010836 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169010837 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 930169010838 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169010839 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 930169010840 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 930169010841 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 930169010842 catalytic loop [active] 930169010843 iron binding site [ion binding]; other site 930169010844 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 930169010845 PQQ-like domain; Region: PQQ_2; pfam13360 930169010846 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 930169010847 sugar binding site [chemical binding]; other site 930169010848 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 930169010849 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 930169010850 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930169010851 EamA-like transporter family; Region: EamA; pfam00892 930169010852 Predicted membrane protein [Function unknown]; Region: COG4125 930169010853 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 930169010854 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 930169010855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169010856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169010857 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 930169010858 dimerization interface [polypeptide binding]; other site 930169010859 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 930169010860 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169010861 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 930169010862 dimerization interface [polypeptide binding]; other site 930169010863 putative DNA binding site [nucleotide binding]; other site 930169010864 putative Zn2+ binding site [ion binding]; other site 930169010865 Methyltransferase domain; Region: Methyltransf_31; pfam13847 930169010866 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 930169010867 S-adenosylmethionine binding site [chemical binding]; other site 930169010868 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 930169010869 EamA-like transporter family; Region: EamA; pfam00892 930169010870 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 930169010871 putative ADP-binding pocket [chemical binding]; other site 930169010872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169010873 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 930169010874 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169010875 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 930169010876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 930169010877 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 930169010878 putative ADP-binding pocket [chemical binding]; other site 930169010879 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 930169010880 MltA-interacting protein MipA; Region: MipA; cl01504 930169010881 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169010882 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 930169010883 Sodium Bile acid symporter family; Region: SBF; pfam01758 930169010884 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 930169010885 serine O-acetyltransferase; Region: cysE; TIGR01172 930169010886 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 930169010887 trimer interface [polypeptide binding]; other site 930169010888 active site 930169010889 substrate binding site [chemical binding]; other site 930169010890 CoA binding site [chemical binding]; other site 930169010891 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 930169010892 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 930169010893 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 930169010894 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 930169010895 active site 930169010896 dimerization interface [polypeptide binding]; other site 930169010897 succinic semialdehyde dehydrogenase; Region: PLN02278 930169010898 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 930169010899 tetramerization interface [polypeptide binding]; other site 930169010900 NAD(P) binding site [chemical binding]; other site 930169010901 catalytic residues [active] 930169010902 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 930169010903 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 930169010904 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 930169010905 inhibitor-cofactor binding pocket; inhibition site 930169010906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169010907 catalytic residue [active] 930169010908 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 930169010909 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 930169010910 NAD binding site [chemical binding]; other site 930169010911 ligand binding site [chemical binding]; other site 930169010912 catalytic site [active] 930169010913 putative amidase; Provisional; Region: PRK06169 930169010914 Amidase; Region: Amidase; pfam01425 930169010915 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 930169010916 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 930169010917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169010918 homodimer interface [polypeptide binding]; other site 930169010919 catalytic residue [active] 930169010920 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 930169010921 Protein export membrane protein; Region: SecD_SecF; pfam02355 930169010922 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 930169010923 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 930169010924 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 930169010925 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 930169010926 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 930169010927 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 930169010928 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 930169010929 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 930169010930 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 930169010931 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 930169010932 RDD family; Region: RDD; pfam06271 930169010933 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 930169010934 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 930169010935 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 930169010936 Predicted permeases [General function prediction only]; Region: COG0795 930169010937 multifunctional aminopeptidase A; Provisional; Region: PRK00913 930169010938 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 930169010939 interface (dimer of trimers) [polypeptide binding]; other site 930169010940 Substrate-binding/catalytic site; other site 930169010941 Zn-binding sites [ion binding]; other site 930169010942 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 930169010943 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 930169010944 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 930169010945 HIGH motif; other site 930169010946 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 930169010947 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 930169010948 active site 930169010949 KMSKS motif; other site 930169010950 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 930169010951 tRNA binding surface [nucleotide binding]; other site 930169010952 anticodon binding site; other site 930169010953 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 930169010954 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169010955 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169010956 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 930169010957 lipid kinase; Reviewed; Region: PRK13054 930169010958 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 930169010959 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 930169010960 Transposase; Region: HTH_Tnp_1; cl17663 930169010961 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169010962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169010963 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169010964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169010965 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169010966 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169010967 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 930169010968 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 930169010969 ketol-acid reductoisomerase; Provisional; Region: PRK05479 930169010970 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 930169010971 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 930169010972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169010973 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 930169010974 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 930169010975 putative dimerization interface [polypeptide binding]; other site 930169010976 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169010977 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169010978 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169010979 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 930169010980 acyl-activating enzyme (AAE) consensus motif; other site 930169010981 putative AMP binding site [chemical binding]; other site 930169010982 putative active site [active] 930169010983 putative CoA binding site [chemical binding]; other site 930169010984 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 930169010985 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169010986 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 930169010987 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 930169010988 putative valine binding site [chemical binding]; other site 930169010989 dimer interface [polypeptide binding]; other site 930169010990 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 930169010991 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 930169010992 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 930169010993 PYR/PP interface [polypeptide binding]; other site 930169010994 dimer interface [polypeptide binding]; other site 930169010995 TPP binding site [chemical binding]; other site 930169010996 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 930169010997 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 930169010998 TPP-binding site [chemical binding]; other site 930169010999 dimer interface [polypeptide binding]; other site 930169011000 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 930169011001 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 930169011002 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 930169011003 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 930169011004 Clp amino terminal domain; Region: Clp_N; pfam02861 930169011005 Clp amino terminal domain; Region: Clp_N; pfam02861 930169011006 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 930169011007 Walker A motif; other site 930169011008 ATP binding site [chemical binding]; other site 930169011009 Walker B motif; other site 930169011010 arginine finger; other site 930169011011 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 930169011012 Walker A motif; other site 930169011013 ATP binding site [chemical binding]; other site 930169011014 Walker B motif; other site 930169011015 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 930169011016 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 930169011017 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 930169011018 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 930169011019 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 930169011020 RNA binding surface [nucleotide binding]; other site 930169011021 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 930169011022 active site 930169011023 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 930169011024 NAD synthetase; Provisional; Region: PRK13981 930169011025 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 930169011026 multimer interface [polypeptide binding]; other site 930169011027 active site 930169011028 catalytic triad [active] 930169011029 protein interface 1 [polypeptide binding]; other site 930169011030 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 930169011031 homodimer interface [polypeptide binding]; other site 930169011032 NAD binding pocket [chemical binding]; other site 930169011033 ATP binding pocket [chemical binding]; other site 930169011034 Mg binding site [ion binding]; other site 930169011035 active-site loop [active] 930169011036 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 930169011037 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 930169011038 dimer interface [polypeptide binding]; other site 930169011039 phosphorylation site [posttranslational modification] 930169011040 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 930169011041 ATP binding site [chemical binding]; other site 930169011042 Mg2+ binding site [ion binding]; other site 930169011043 G-X-G motif; other site 930169011044 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 930169011045 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 930169011046 active site 930169011047 phosphorylation site [posttranslational modification] 930169011048 intermolecular recognition site; other site 930169011049 dimerization interface [polypeptide binding]; other site 930169011050 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 930169011051 Walker A motif; other site 930169011052 ATP binding site [chemical binding]; other site 930169011053 Walker B motif; other site 930169011054 arginine finger; other site 930169011055 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169011056 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 930169011057 Type II transport protein GspH; Region: GspH; pfam12019 930169011058 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 930169011059 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 930169011060 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 930169011061 metal ion-dependent adhesion site (MIDAS); other site 930169011062 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 930169011063 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 930169011064 PilX N-terminal; Region: PilX_N; pfam14341 930169011065 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 930169011066 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 930169011067 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 930169011068 Type II transport protein GspH; Region: GspH; pfam12019 930169011069 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 930169011070 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 930169011071 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930169011072 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 930169011073 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 930169011074 lipoprotein signal peptidase; Provisional; Region: PRK14787 930169011075 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 930169011076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 930169011077 active site 930169011078 HIGH motif; other site 930169011079 nucleotide binding site [chemical binding]; other site 930169011080 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 930169011081 active site 930169011082 KMSKS motif; other site 930169011083 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 930169011084 tRNA binding surface [nucleotide binding]; other site 930169011085 anticodon binding site; other site 930169011086 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 930169011087 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 930169011088 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 930169011089 active site 930169011090 Riboflavin kinase; Region: Flavokinase; smart00904 930169011091 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 930169011092 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 930169011093 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 930169011094 gamma-glutamyl kinase; Provisional; Region: PRK05429 930169011095 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 930169011096 nucleotide binding site [chemical binding]; other site 930169011097 homotetrameric interface [polypeptide binding]; other site 930169011098 putative phosphate binding site [ion binding]; other site 930169011099 putative allosteric binding site; other site 930169011100 PUA domain; Region: PUA; pfam01472 930169011101 GTPase CgtA; Reviewed; Region: obgE; PRK12298 930169011102 GTP1/OBG; Region: GTP1_OBG; pfam01018 930169011103 Obg GTPase; Region: Obg; cd01898 930169011104 G1 box; other site 930169011105 GTP/Mg2+ binding site [chemical binding]; other site 930169011106 Switch I region; other site 930169011107 G2 box; other site 930169011108 G3 box; other site 930169011109 Switch II region; other site 930169011110 G4 box; other site 930169011111 G5 box; other site 930169011112 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 930169011113 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 930169011114 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 930169011115 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 930169011116 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 930169011117 substrate binding pocket [chemical binding]; other site 930169011118 chain length determination region; other site 930169011119 substrate-Mg2+ binding site; other site 930169011120 catalytic residues [active] 930169011121 aspartate-rich region 1; other site 930169011122 active site lid residues [active] 930169011123 aspartate-rich region 2; other site 930169011124 hypothetical protein; Provisional; Region: PRK11627 930169011125 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 930169011126 Rdx family; Region: Rdx; cl01407 930169011127 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 930169011128 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 930169011129 HIT family signature motif; other site 930169011130 catalytic residue [active] 930169011131 MAPEG family; Region: MAPEG; pfam01124 930169011132 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169011133 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169011134 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169011135 short chain dehydrogenase; Provisional; Region: PRK08278 930169011136 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 930169011137 NAD(P) binding site [chemical binding]; other site 930169011138 homodimer interface [polypeptide binding]; other site 930169011139 active site 930169011140 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 930169011141 ABC1 family; Region: ABC1; cl17513 930169011142 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 930169011143 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 930169011144 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 930169011145 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 930169011146 Walker A motif; other site 930169011147 ATP binding site [chemical binding]; other site 930169011148 Walker B motif; other site 930169011149 arginine finger; other site 930169011150 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 930169011151 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 930169011152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169011153 short chain dehydrogenase; Provisional; Region: PRK07201 930169011154 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 930169011155 putative NAD(P) binding site [chemical binding]; other site 930169011156 active site 930169011157 putative substrate binding site [chemical binding]; other site 930169011158 classical (c) SDRs; Region: SDR_c; cd05233 930169011159 NAD(P) binding site [chemical binding]; other site 930169011160 active site 930169011161 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169011162 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169011163 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 930169011164 catalytic site [active] 930169011165 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 930169011166 dimerization interface [polypeptide binding]; other site 930169011167 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 930169011168 cyclase homology domain; Region: CHD; cd07302 930169011169 nucleotidyl binding site; other site 930169011170 metal binding site [ion binding]; metal-binding site 930169011171 dimer interface [polypeptide binding]; other site 930169011172 type II secretion system protein D; Region: type_II_gspD; TIGR02517 930169011173 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930169011174 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930169011175 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930169011176 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 930169011177 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 930169011178 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 930169011179 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 930169011180 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 930169011181 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 930169011182 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169011183 FecR protein; Region: FecR; pfam04773 930169011184 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 930169011185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169011186 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 930169011187 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169011188 Gram-negative bacterial tonB protein; Region: TonB; cl10048 930169011189 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 930169011190 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 930169011191 dimer interface [polypeptide binding]; other site 930169011192 ssDNA binding site [nucleotide binding]; other site 930169011193 tetramer (dimer of dimers) interface [polypeptide binding]; other site 930169011194 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 930169011195 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169011196 putative substrate translocation pore; other site 930169011197 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 930169011198 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 930169011199 DNA binding residues [nucleotide binding] 930169011200 dimerization interface [polypeptide binding]; other site 930169011201 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 930169011202 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 930169011203 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 930169011204 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 930169011205 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 930169011206 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 930169011207 putative active site [active] 930169011208 catalytic site [active] 930169011209 putative metal binding site [ion binding]; other site 930169011210 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 930169011211 Ferritin-like domain; Region: Ferritin; pfam00210 930169011212 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 930169011213 dinuclear metal binding motif [ion binding]; other site 930169011214 putative transporter; Provisional; Region: PRK11660 930169011215 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930169011216 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930169011217 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 930169011218 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 930169011219 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 930169011220 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 930169011221 alphaNTD homodimer interface [polypeptide binding]; other site 930169011222 alphaNTD - beta interaction site [polypeptide binding]; other site 930169011223 alphaNTD - beta' interaction site [polypeptide binding]; other site 930169011224 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 930169011225 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 930169011226 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 930169011227 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 930169011228 RNA binding surface [nucleotide binding]; other site 930169011229 30S ribosomal protein S11; Validated; Region: PRK05309 930169011230 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 930169011231 30S ribosomal protein S13; Region: bact_S13; TIGR03631 930169011232 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 930169011233 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 930169011234 SecY translocase; Region: SecY; pfam00344 930169011235 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 930169011236 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 930169011237 23S rRNA binding site [nucleotide binding]; other site 930169011238 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 930169011239 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 930169011240 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 930169011241 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 930169011242 5S rRNA interface [nucleotide binding]; other site 930169011243 23S rRNA interface [nucleotide binding]; other site 930169011244 L5 interface [polypeptide binding]; other site 930169011245 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 930169011246 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 930169011247 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 930169011248 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 930169011249 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 930169011250 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 930169011251 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 930169011252 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 930169011253 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 930169011254 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 930169011255 RNA binding site [nucleotide binding]; other site 930169011256 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 930169011257 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 930169011258 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 930169011259 23S rRNA interface [nucleotide binding]; other site 930169011260 putative translocon interaction site; other site 930169011261 signal recognition particle (SRP54) interaction site; other site 930169011262 L23 interface [polypeptide binding]; other site 930169011263 trigger factor interaction site; other site 930169011264 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 930169011265 23S rRNA interface [nucleotide binding]; other site 930169011266 5S rRNA interface [nucleotide binding]; other site 930169011267 putative antibiotic binding site [chemical binding]; other site 930169011268 L25 interface [polypeptide binding]; other site 930169011269 L27 interface [polypeptide binding]; other site 930169011270 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 930169011271 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 930169011272 G-X-X-G motif; other site 930169011273 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 930169011274 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 930169011275 protein-rRNA interface [nucleotide binding]; other site 930169011276 putative translocon binding site; other site 930169011277 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 930169011278 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 930169011279 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 930169011280 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 930169011281 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 930169011282 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 930169011283 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 930169011284 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 930169011285 elongation factor Tu; Region: tufA; CHL00071 930169011286 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 930169011287 GTP/Mg2+ binding site [chemical binding]; other site 930169011288 Switch I region; other site 930169011289 G2 box; other site 930169011290 GEF interaction site [polypeptide binding]; other site 930169011291 G3 box; other site 930169011292 Switch II region; other site 930169011293 G4 box; other site 930169011294 G5 box; other site 930169011295 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 930169011296 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 930169011297 Antibiotic Binding Site [chemical binding]; other site 930169011298 elongation factor G; Reviewed; Region: PRK00007 930169011299 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 930169011300 G1 box; other site 930169011301 putative GEF interaction site [polypeptide binding]; other site 930169011302 GTP/Mg2+ binding site [chemical binding]; other site 930169011303 Switch I region; other site 930169011304 G2 box; other site 930169011305 G3 box; other site 930169011306 Switch II region; other site 930169011307 G4 box; other site 930169011308 G5 box; other site 930169011309 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 930169011310 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 930169011311 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 930169011312 30S ribosomal protein S7; Validated; Region: PRK05302 930169011313 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 930169011314 S17 interaction site [polypeptide binding]; other site 930169011315 S8 interaction site; other site 930169011316 16S rRNA interaction site [nucleotide binding]; other site 930169011317 streptomycin interaction site [chemical binding]; other site 930169011318 23S rRNA interaction site [nucleotide binding]; other site 930169011319 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 930169011320 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 930169011321 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 930169011322 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 930169011323 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 930169011324 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 930169011325 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 930169011326 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 930169011327 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 930169011328 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 930169011329 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 930169011330 DNA binding site [nucleotide binding] 930169011331 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 930169011332 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 930169011333 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 930169011334 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 930169011335 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 930169011336 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 930169011337 Tropomyosin like; Region: Tropomyosin_1; pfam12718 930169011338 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 930169011339 RPB3 interaction site [polypeptide binding]; other site 930169011340 RPB1 interaction site [polypeptide binding]; other site 930169011341 RPB11 interaction site [polypeptide binding]; other site 930169011342 RPB10 interaction site [polypeptide binding]; other site 930169011343 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 930169011344 peripheral dimer interface [polypeptide binding]; other site 930169011345 core dimer interface [polypeptide binding]; other site 930169011346 L10 interface [polypeptide binding]; other site 930169011347 L11 interface [polypeptide binding]; other site 930169011348 putative EF-Tu interaction site [polypeptide binding]; other site 930169011349 putative EF-G interaction site [polypeptide binding]; other site 930169011350 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 930169011351 23S rRNA interface [nucleotide binding]; other site 930169011352 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 930169011353 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 930169011354 mRNA/rRNA interface [nucleotide binding]; other site 930169011355 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 930169011356 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 930169011357 23S rRNA interface [nucleotide binding]; other site 930169011358 L7/L12 interface [polypeptide binding]; other site 930169011359 putative thiostrepton binding site; other site 930169011360 L25 interface [polypeptide binding]; other site 930169011361 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 930169011362 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 930169011363 putative homodimer interface [polypeptide binding]; other site 930169011364 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 930169011365 heterodimer interface [polypeptide binding]; other site 930169011366 homodimer interface [polypeptide binding]; other site 930169011367 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 930169011368 elongation factor Tu; Region: tufA; CHL00071 930169011369 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 930169011370 GTP/Mg2+ binding site [chemical binding]; other site 930169011371 Switch I region; other site 930169011372 G2 box; other site 930169011373 GEF interaction site [polypeptide binding]; other site 930169011374 G3 box; other site 930169011375 Switch II region; other site 930169011376 G4 box; other site 930169011377 G5 box; other site 930169011378 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 930169011379 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 930169011380 Antibiotic Binding Site [chemical binding]; other site 930169011381 Sporulation related domain; Region: SPOR; pfam05036 930169011382 Type III pantothenate kinase; Region: Pan_kinase; cl17198 930169011383 Biotin operon repressor [Transcription]; Region: BirA; COG1654 930169011384 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 930169011385 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 930169011386 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 930169011387 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 930169011388 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 930169011389 acyl-activating enzyme (AAE) consensus motif; other site 930169011390 putative AMP binding site [chemical binding]; other site 930169011391 putative active site [active] 930169011392 putative CoA binding site [chemical binding]; other site 930169011393 Transposase; Region: HTH_Tnp_1; cl17663 930169011394 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 930169011395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169011396 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 930169011397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 930169011398 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 930169011399 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 930169011400 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 930169011401 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 930169011402 active site 930169011403 HIGH motif; other site 930169011404 dimer interface [polypeptide binding]; other site 930169011405 KMSKS motif; other site 930169011406 S4 domain; Region: S4_2; cl17325 930169011407 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 930169011408 Peptidase family M23; Region: Peptidase_M23; pfam01551 930169011409 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 930169011410 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 930169011411 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 930169011412 active site 930169011413 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 930169011414 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 930169011415 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 930169011416 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 930169011417 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 930169011418 putative ion selectivity filter; other site 930169011419 putative pore gating glutamate residue; other site 930169011420 putative H+/Cl- coupling transport residue; other site 930169011421 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 930169011422 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 930169011423 dimer interface [polypeptide binding]; other site 930169011424 substrate binding site [chemical binding]; other site 930169011425 ATP binding site [chemical binding]; other site 930169011426 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 930169011427 thiamine phosphate binding site [chemical binding]; other site 930169011428 active site 930169011429 pyrophosphate binding site [ion binding]; other site 930169011430 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 930169011431 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 930169011432 inhibitor-cofactor binding pocket; inhibition site 930169011433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169011434 catalytic residue [active] 930169011435 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 930169011436 putative deacylase active site [active] 930169011437 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 930169011438 binding surface 930169011439 TPR motif; other site 930169011440 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 930169011441 Transglycosylase; Region: Transgly; pfam00912 930169011442 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930169011443 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 930169011444 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 930169011445 substrate binding site [chemical binding]; other site 930169011446 ATP binding site [chemical binding]; other site 930169011447 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 930169011448 iron-sulfur cluster [ion binding]; other site 930169011449 [2Fe-2S] cluster binding site [ion binding]; other site 930169011450 serine/threonine protein kinase; Provisional; Region: PRK11768 930169011451 Phosphotransferase enzyme family; Region: APH; pfam01636 930169011452 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 930169011453 hypothetical protein; Provisional; Region: PRK08960 930169011454 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 930169011455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169011456 homodimer interface [polypeptide binding]; other site 930169011457 catalytic residue [active] 930169011458 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 930169011459 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 930169011460 active site 930169011461 nucleotide binding site [chemical binding]; other site 930169011462 HIGH motif; other site 930169011463 KMSKS motif; other site 930169011464 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 930169011465 Na binding site [ion binding]; other site 930169011466 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 930169011467 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 930169011468 putative active site [active] 930169011469 heme pocket [chemical binding]; other site 930169011470 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 930169011471 dimer interface [polypeptide binding]; other site 930169011472 phosphorylation site [posttranslational modification] 930169011473 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 930169011474 ATP binding site [chemical binding]; other site 930169011475 Mg2+ binding site [ion binding]; other site 930169011476 G-X-G motif; other site 930169011477 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 930169011478 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 930169011479 active site 930169011480 phosphorylation site [posttranslational modification] 930169011481 intermolecular recognition site; other site 930169011482 dimerization interface [polypeptide binding]; other site 930169011483 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 930169011484 Walker A motif; other site 930169011485 ATP binding site [chemical binding]; other site 930169011486 Walker B motif; other site 930169011487 arginine finger; other site 930169011488 poly(A) polymerase; Region: pcnB; TIGR01942 930169011489 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 930169011490 active site 930169011491 NTP binding site [chemical binding]; other site 930169011492 metal binding triad [ion binding]; metal-binding site 930169011493 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 930169011494 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 930169011495 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 930169011496 catalytic center binding site [active] 930169011497 ATP binding site [chemical binding]; other site 930169011498 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 930169011499 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 930169011500 Substrate-binding site [chemical binding]; other site 930169011501 Substrate specificity [chemical binding]; other site 930169011502 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 930169011503 oligomerization interface [polypeptide binding]; other site 930169011504 active site 930169011505 metal binding site [ion binding]; metal-binding site 930169011506 pantoate--beta-alanine ligase; Region: panC; TIGR00018 930169011507 Pantoate-beta-alanine ligase; Region: PanC; cd00560 930169011508 active site 930169011509 ATP-binding site [chemical binding]; other site 930169011510 pantoate-binding site; other site 930169011511 HXXH motif; other site 930169011512 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 930169011513 tetramerization interface [polypeptide binding]; other site 930169011514 active site 930169011515 acetyl-CoA synthetase; Provisional; Region: PRK00174 930169011516 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 930169011517 active site 930169011518 CoA binding site [chemical binding]; other site 930169011519 acyl-activating enzyme (AAE) consensus motif; other site 930169011520 AMP binding site [chemical binding]; other site 930169011521 acetate binding site [chemical binding]; other site 930169011522 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 930169011523 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 930169011524 putative substrate translocation pore; other site 930169011525 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 930169011526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169011527 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169011528 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 930169011529 MarR family; Region: MarR_2; pfam12802 930169011530 Predicted permease [General function prediction only]; Region: COG2056 930169011531 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 930169011532 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 930169011533 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 930169011534 RNase E interface [polypeptide binding]; other site 930169011535 trimer interface [polypeptide binding]; other site 930169011536 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 930169011537 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 930169011538 RNase E interface [polypeptide binding]; other site 930169011539 trimer interface [polypeptide binding]; other site 930169011540 active site 930169011541 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 930169011542 putative nucleic acid binding region [nucleotide binding]; other site 930169011543 G-X-X-G motif; other site 930169011544 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 930169011545 RNA binding site [nucleotide binding]; other site 930169011546 domain interface; other site 930169011547 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 930169011548 16S/18S rRNA binding site [nucleotide binding]; other site 930169011549 S13e-L30e interaction site [polypeptide binding]; other site 930169011550 25S rRNA binding site [nucleotide binding]; other site 930169011551 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 930169011552 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 930169011553 RNA binding site [nucleotide binding]; other site 930169011554 active site 930169011555 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 930169011556 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 930169011557 translation initiation factor IF-2; Region: IF-2; TIGR00487 930169011558 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 930169011559 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 930169011560 G1 box; other site 930169011561 putative GEF interaction site [polypeptide binding]; other site 930169011562 GTP/Mg2+ binding site [chemical binding]; other site 930169011563 Switch I region; other site 930169011564 G2 box; other site 930169011565 G3 box; other site 930169011566 Switch II region; other site 930169011567 G4 box; other site 930169011568 G5 box; other site 930169011569 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 930169011570 Translation-initiation factor 2; Region: IF-2; pfam11987 930169011571 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 930169011572 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 930169011573 NusA N-terminal domain; Region: NusA_N; pfam08529 930169011574 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 930169011575 RNA binding site [nucleotide binding]; other site 930169011576 homodimer interface [polypeptide binding]; other site 930169011577 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 930169011578 G-X-X-G motif; other site 930169011579 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 930169011580 G-X-X-G motif; other site 930169011581 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 930169011582 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 930169011583 ribosome maturation protein RimP; Reviewed; Region: PRK00092 930169011584 Sm and related proteins; Region: Sm_like; cl00259 930169011585 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 930169011586 putative oligomer interface [polypeptide binding]; other site 930169011587 putative RNA binding site [nucleotide binding]; other site 930169011588 Preprotein translocase SecG subunit; Region: SecG; pfam03840 930169011589 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 930169011590 triosephosphate isomerase; Provisional; Region: PRK14567 930169011591 substrate binding site [chemical binding]; other site 930169011592 dimer interface [polypeptide binding]; other site 930169011593 catalytic triad [active] 930169011594 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 930169011595 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 930169011596 active site 930169011597 substrate binding site [chemical binding]; other site 930169011598 metal binding site [ion binding]; metal-binding site 930169011599 dihydropteroate synthase; Region: DHPS; TIGR01496 930169011600 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 930169011601 substrate binding pocket [chemical binding]; other site 930169011602 dimer interface [polypeptide binding]; other site 930169011603 inhibitor binding site; inhibition site 930169011604 FtsH Extracellular; Region: FtsH_ext; pfam06480 930169011605 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 930169011606 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 930169011607 Walker A motif; other site 930169011608 ATP binding site [chemical binding]; other site 930169011609 Walker B motif; other site 930169011610 arginine finger; other site 930169011611 Peptidase family M41; Region: Peptidase_M41; pfam01434 930169011612 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 930169011613 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 930169011614 S-adenosylmethionine binding site [chemical binding]; other site 930169011615 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 930169011616 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 930169011617 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 930169011618 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930169011619 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 930169011620 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169011621 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 930169011622 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 930169011623 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 930169011624 ATP-grasp domain; Region: ATP-grasp_4; cl17255 930169011625 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 930169011626 IMP binding site; other site 930169011627 dimer interface [polypeptide binding]; other site 930169011628 interdomain contacts; other site 930169011629 partial ornithine binding site; other site 930169011630 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 930169011631 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 930169011632 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 930169011633 catalytic site [active] 930169011634 subunit interface [polypeptide binding]; other site 930169011635 dihydrodipicolinate reductase; Provisional; Region: PRK00048 930169011636 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 930169011637 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 930169011638 chaperone protein DnaJ; Provisional; Region: PRK10767 930169011639 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 930169011640 HSP70 interaction site [polypeptide binding]; other site 930169011641 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 930169011642 substrate binding site [polypeptide binding]; other site 930169011643 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 930169011644 Zn binding sites [ion binding]; other site 930169011645 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 930169011646 dimer interface [polypeptide binding]; other site 930169011647 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 930169011648 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 930169011649 nucleotide binding site [chemical binding]; other site 930169011650 GrpE; Region: GrpE; pfam01025 930169011651 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 930169011652 dimer interface [polypeptide binding]; other site 930169011653 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 930169011654 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 930169011655 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 930169011656 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 930169011657 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 930169011658 Walker A/P-loop; other site 930169011659 ATP binding site [chemical binding]; other site 930169011660 Q-loop/lid; other site 930169011661 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 930169011662 ABC transporter signature motif; other site 930169011663 Walker B; other site 930169011664 D-loop; other site 930169011665 H-loop/switch region; other site 930169011666 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 930169011667 metal binding site 2 [ion binding]; metal-binding site 930169011668 putative DNA binding helix; other site 930169011669 metal binding site 1 [ion binding]; metal-binding site 930169011670 dimer interface [polypeptide binding]; other site 930169011671 structural Zn2+ binding site [ion binding]; other site 930169011672 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 930169011673 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 930169011674 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 930169011675 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 930169011676 Na2 binding site [ion binding]; other site 930169011677 putative substrate binding site 1 [chemical binding]; other site 930169011678 Na binding site 1 [ion binding]; other site 930169011679 putative substrate binding site 2 [chemical binding]; other site 930169011680 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 930169011681 SmpB-tmRNA interface; other site 930169011682 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 930169011683 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 930169011684 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 930169011685 active site 930169011686 catalytic tetrad [active] 930169011687 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169011688 classical (c) SDRs; Region: SDR_c; cd05233 930169011689 NAD(P) binding site [chemical binding]; other site 930169011690 active site 930169011691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169011692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169011693 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 930169011694 putative effector binding pocket; other site 930169011695 dimerization interface [polypeptide binding]; other site 930169011696 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 930169011697 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 930169011698 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 930169011699 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 930169011700 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 930169011701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169011702 dimer interface [polypeptide binding]; other site 930169011703 ligand binding site [chemical binding]; other site 930169011704 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 930169011705 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 930169011706 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 930169011707 Amidase; Region: Amidase; cl11426 930169011708 indole-3-acetamide amidohydrolase; Region: PLN02722 930169011709 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 930169011710 SnoaL-like domain; Region: SnoaL_3; pfam13474 930169011711 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169011712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169011713 DNA-binding site [nucleotide binding]; DNA binding site 930169011714 FCD domain; Region: FCD; pfam07729 930169011715 NMT1/THI5 like; Region: NMT1; pfam09084 930169011716 Creatinine amidohydrolase; Region: Creatininase; pfam02633 930169011717 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 930169011718 FAD binding domain; Region: FAD_binding_4; pfam01565 930169011719 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169011720 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 930169011721 dimer interface [polypeptide binding]; other site 930169011722 conserved gate region; other site 930169011723 putative PBP binding loops; other site 930169011724 ABC-ATPase subunit interface; other site 930169011725 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169011726 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169011727 Walker A/P-loop; other site 930169011728 ATP binding site [chemical binding]; other site 930169011729 Q-loop/lid; other site 930169011730 ABC transporter signature motif; other site 930169011731 Walker B; other site 930169011732 D-loop; other site 930169011733 H-loop/switch region; other site 930169011734 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 930169011735 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 930169011736 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 930169011737 Isochorismatase family; Region: Isochorismatase; pfam00857 930169011738 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 930169011739 catalytic triad [active] 930169011740 conserved cis-peptide bond; other site 930169011741 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 930169011742 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 930169011743 trimer interface [polypeptide binding]; other site 930169011744 eyelet of channel; other site 930169011745 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 930169011746 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 930169011747 [2Fe-2S] cluster binding site [ion binding]; other site 930169011748 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169011749 hydrophobic ligand binding site; other site 930169011750 cyanate transporter; Region: CynX; TIGR00896 930169011751 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 930169011752 putative substrate translocation pore; other site 930169011753 amidohydrolase; Provisional; Region: PRK12393 930169011754 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 930169011755 active site 930169011756 putative substrate binding pocket [chemical binding]; other site 930169011757 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 930169011758 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 930169011759 [2Fe-2S] cluster binding site [ion binding]; other site 930169011760 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169011761 hydrophobic ligand binding site; other site 930169011762 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 930169011763 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 930169011764 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 930169011765 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169011766 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169011767 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 930169011768 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 930169011769 active site 930169011770 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 930169011771 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 930169011772 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 930169011773 active site 930169011774 catalytic site [active] 930169011775 tetramer interface [polypeptide binding]; other site 930169011776 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 930169011777 active site 930169011778 homotetramer interface [polypeptide binding]; other site 930169011779 Predicted membrane protein [Function unknown]; Region: COG3748 930169011780 Protein of unknown function (DUF989); Region: DUF989; pfam06181 930169011781 Cytochrome c; Region: Cytochrom_C; pfam00034 930169011782 allantoicase; Provisional; Region: PRK13257 930169011783 Allantoicase repeat; Region: Allantoicase; pfam03561 930169011784 Allantoicase repeat; Region: Allantoicase; pfam03561 930169011785 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 930169011786 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 930169011787 Transcriptional regulators [Transcription]; Region: GntR; COG1802 930169011788 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169011789 DNA-binding site [nucleotide binding]; DNA binding site 930169011790 FCD domain; Region: FCD; pfam07729 930169011791 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 930169011792 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 930169011793 active site 930169011794 putative substrate binding pocket [chemical binding]; other site 930169011795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169011796 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169011797 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 930169011798 dimerization interface [polypeptide binding]; other site 930169011799 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 930169011800 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 930169011801 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 930169011802 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169011803 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 930169011804 NMT1/THI5 like; Region: NMT1; pfam09084 930169011805 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 930169011806 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169011807 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169011808 Walker A/P-loop; other site 930169011809 ATP binding site [chemical binding]; other site 930169011810 Q-loop/lid; other site 930169011811 ABC transporter signature motif; other site 930169011812 Walker B; other site 930169011813 D-loop; other site 930169011814 H-loop/switch region; other site 930169011815 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169011816 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 930169011817 dimer interface [polypeptide binding]; other site 930169011818 conserved gate region; other site 930169011819 putative PBP binding loops; other site 930169011820 ABC-ATPase subunit interface; other site 930169011821 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169011822 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 930169011823 dimer interface [polypeptide binding]; other site 930169011824 conserved gate region; other site 930169011825 putative PBP binding loops; other site 930169011826 ABC-ATPase subunit interface; other site 930169011827 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169011828 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169011829 Walker A/P-loop; other site 930169011830 ATP binding site [chemical binding]; other site 930169011831 Q-loop/lid; other site 930169011832 ABC transporter signature motif; other site 930169011833 Walker B; other site 930169011834 D-loop; other site 930169011835 H-loop/switch region; other site 930169011836 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 930169011837 NMT1/THI5 like; Region: NMT1; pfam09084 930169011838 substrate binding pocket [chemical binding]; other site 930169011839 membrane-bound complex binding site; other site 930169011840 hinge residues; other site 930169011841 dihydroorotase; Provisional; Region: PRK09237 930169011842 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 930169011843 active site 930169011844 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169011845 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 930169011846 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 930169011847 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169011848 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 930169011849 nucleoside/Zn binding site; other site 930169011850 dimer interface [polypeptide binding]; other site 930169011851 catalytic motif [active] 930169011852 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 930169011853 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 930169011854 Sulfate transporter family; Region: Sulfate_transp; pfam00916 930169011855 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 930169011856 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 930169011857 Transglycosylase; Region: Transgly; cl17702 930169011858 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 930169011859 META domain; Region: META; pfam03724 930169011860 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 930169011861 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 930169011862 catalytic triad [active] 930169011863 2-isopropylmalate synthase; Validated; Region: PRK03739 930169011864 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 930169011865 active site 930169011866 catalytic residues [active] 930169011867 metal binding site [ion binding]; metal-binding site 930169011868 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 930169011869 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930169011870 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 930169011871 putative DNA binding site [nucleotide binding]; other site 930169011872 putative Zn2+ binding site [ion binding]; other site 930169011873 AsnC family; Region: AsnC_trans_reg; pfam01037 930169011874 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169011875 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169011876 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169011877 acyl-activating enzyme (AAE) consensus motif; other site 930169011878 acyl-activating enzyme (AAE) consensus motif; other site 930169011879 putative AMP binding site [chemical binding]; other site 930169011880 putative active site [active] 930169011881 putative CoA binding site [chemical binding]; other site 930169011882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169011883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169011884 lipid-transfer protein; Provisional; Region: PRK08256 930169011885 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 930169011886 active site 930169011887 (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 930169011888 active site 930169011889 catalytic site [active] 930169011890 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 930169011891 active site 2 [active] 930169011892 active site 1 [active] 930169011893 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 930169011894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169011895 NAD(P) binding site [chemical binding]; other site 930169011896 active site 930169011897 enoyl-CoA hydratase; Provisional; Region: PRK08140 930169011898 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 930169011899 substrate binding site [chemical binding]; other site 930169011900 oxyanion hole (OAH) forming residues; other site 930169011901 trimer interface [polypeptide binding]; other site 930169011902 ornithine cyclodeaminase; Validated; Region: PRK07589 930169011903 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 930169011904 Arginase family; Region: Arginase; cd09989 930169011905 active site 930169011906 Mn binding site [ion binding]; other site 930169011907 oligomer interface [polypeptide binding]; other site 930169011908 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 930169011909 Proline dehydrogenase; Region: Pro_dh; pfam01619 930169011910 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 930169011911 Glutamate binding site [chemical binding]; other site 930169011912 NAD binding site [chemical binding]; other site 930169011913 catalytic residues [active] 930169011914 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169011915 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 930169011916 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 930169011917 AAA domain; Region: AAA_26; pfam13500 930169011918 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 930169011919 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 930169011920 S-adenosylmethionine binding site [chemical binding]; other site 930169011921 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 930169011922 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 930169011923 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 930169011924 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 930169011925 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169011926 catalytic residue [active] 930169011927 biotin synthase; Provisional; Region: PRK15108 930169011928 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 930169011929 FeS/SAM binding site; other site 930169011930 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 930169011931 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 930169011932 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 930169011933 active site 930169011934 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 930169011935 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169011936 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169011937 active site 930169011938 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_a; cd00913 930169011939 aromatic arch; other site 930169011940 DCoH dimer interaction site [polypeptide binding]; other site 930169011941 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 930169011942 DCoH tetramer interaction site [polypeptide binding]; other site 930169011943 substrate binding site [chemical binding]; other site 930169011944 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 930169011945 CoenzymeA binding site [chemical binding]; other site 930169011946 subunit interaction site [polypeptide binding]; other site 930169011947 PHB binding site; other site 930169011948 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 930169011949 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 930169011950 substrate binding site [chemical binding]; other site 930169011951 active site 930169011952 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 930169011953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169011954 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 930169011955 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 930169011956 active site 930169011957 dimer interface [polypeptide binding]; other site 930169011958 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 930169011959 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 930169011960 active site 930169011961 FMN binding site [chemical binding]; other site 930169011962 substrate binding site [chemical binding]; other site 930169011963 3Fe-4S cluster binding site [ion binding]; other site 930169011964 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 930169011965 domain interface; other site 930169011966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 930169011967 Sporulation related domain; Region: SPOR; pfam05036 930169011968 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 930169011969 active site 930169011970 dimer interface [polypeptide binding]; other site 930169011971 metal binding site [ion binding]; metal-binding site 930169011972 shikimate kinase; Reviewed; Region: aroK; PRK00131 930169011973 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 930169011974 ADP binding site [chemical binding]; other site 930169011975 magnesium binding site [ion binding]; other site 930169011976 putative shikimate binding site; other site 930169011977 AMIN domain; Region: AMIN; pfam11741 930169011978 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 930169011979 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169011980 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 930169011981 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 930169011982 Pilus assembly protein, PilP; Region: PilP; pfam04351 930169011983 Pilus assembly protein, PilO; Region: PilO; pfam04350 930169011984 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 930169011985 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 930169011986 Competence protein A; Region: Competence_A; pfam11104 930169011987 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 930169011988 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 930169011989 Transglycosylase; Region: Transgly; pfam00912 930169011990 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930169011991 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 930169011992 DKNYY family; Region: DKNYY; pfam13644 930169011993 DKNYY family; Region: DKNYY; pfam13644 930169011994 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169011995 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930169011996 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 930169011997 TM-ABC transporter signature motif; other site 930169011998 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169011999 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 930169012000 TM-ABC transporter signature motif; other site 930169012001 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 930169012002 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169012003 Walker A/P-loop; other site 930169012004 ATP binding site [chemical binding]; other site 930169012005 Q-loop/lid; other site 930169012006 ABC transporter signature motif; other site 930169012007 Walker B; other site 930169012008 D-loop; other site 930169012009 H-loop/switch region; other site 930169012010 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 930169012011 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169012012 Walker A/P-loop; other site 930169012013 ATP binding site [chemical binding]; other site 930169012014 Q-loop/lid; other site 930169012015 ABC transporter signature motif; other site 930169012016 Walker B; other site 930169012017 D-loop; other site 930169012018 H-loop/switch region; other site 930169012019 Amidase; Region: Amidase; cl11426 930169012020 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 930169012021 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 930169012022 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 930169012023 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 930169012024 ANTAR domain; Region: ANTAR; pfam03861 930169012025 Malic enzyme, N-terminal domain; Region: malic; pfam00390 930169012026 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 930169012027 putative NAD(P) binding site [chemical binding]; other site 930169012028 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 930169012029 primosome assembly protein PriA; Validated; Region: PRK05580 930169012030 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 930169012031 ATP binding site [chemical binding]; other site 930169012032 putative Mg++ binding site [ion binding]; other site 930169012033 helicase superfamily c-terminal domain; Region: HELICc; smart00490 930169012034 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 930169012035 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 930169012036 putative substrate translocation pore; other site 930169012037 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 930169012038 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 930169012039 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169012040 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169012041 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 930169012042 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 930169012043 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 930169012044 active site 930169012045 HIGH motif; other site 930169012046 KMSK motif region; other site 930169012047 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 930169012048 tRNA binding surface [nucleotide binding]; other site 930169012049 anticodon binding site; other site 930169012050 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 930169012051 Sporulation related domain; Region: SPOR; pfam05036 930169012052 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 930169012053 active site 930169012054 HslU subunit interaction site [polypeptide binding]; other site 930169012055 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 930169012056 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 930169012057 Walker A motif; other site 930169012058 ATP binding site [chemical binding]; other site 930169012059 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 930169012060 Walker B motif; other site 930169012061 arginine finger; other site 930169012062 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 930169012063 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 930169012064 Transcriptional regulator [Transcription]; Region: IclR; COG1414 930169012065 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 930169012066 Bacterial transcriptional regulator; Region: IclR; pfam01614 930169012067 succinic semialdehyde dehydrogenase; Region: PLN02278 930169012068 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 930169012069 tetramerization interface [polypeptide binding]; other site 930169012070 NAD(P) binding site [chemical binding]; other site 930169012071 catalytic residues [active] 930169012072 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 930169012073 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 930169012074 putative active site [active] 930169012075 metal binding site [ion binding]; metal-binding site 930169012076 Predicted membrane protein [Function unknown]; Region: COG3686 930169012077 Methyltransferase domain; Region: Methyltransf_24; pfam13578 930169012078 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 930169012079 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 930169012080 catalytic loop [active] 930169012081 iron binding site [ion binding]; other site 930169012082 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 930169012083 FAD binding pocket [chemical binding]; other site 930169012084 conserved FAD binding motif [chemical binding]; other site 930169012085 phosphate binding motif [ion binding]; other site 930169012086 beta-alpha-beta structure motif; other site 930169012087 NAD binding pocket [chemical binding]; other site 930169012088 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 930169012089 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 930169012090 Paraquat-inducible protein A; Region: PqiA; pfam04403 930169012091 Paraquat-inducible protein A; Region: PqiA; pfam04403 930169012092 paraquat-inducible protein B; Provisional; Region: PRK10807 930169012093 mce related protein; Region: MCE; pfam02470 930169012094 mce related protein; Region: MCE; pfam02470 930169012095 mce related protein; Region: MCE; pfam02470 930169012096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 930169012097 Protein of unknown function (DUF330); Region: DUF330; pfam03886 930169012098 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 930169012099 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 930169012100 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 930169012101 active site 930169012102 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 930169012103 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 930169012104 domain interfaces; other site 930169012105 active site 930169012106 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 930169012107 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 930169012108 active site 930169012109 phosphorylation site [posttranslational modification] 930169012110 intermolecular recognition site; other site 930169012111 dimerization interface [polypeptide binding]; other site 930169012112 LytTr DNA-binding domain; Region: LytTR; smart00850 930169012113 Histidine kinase; Region: His_kinase; pfam06580 930169012114 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 930169012115 argininosuccinate lyase; Provisional; Region: PRK00855 930169012116 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 930169012117 active sites [active] 930169012118 tetramer interface [polypeptide binding]; other site 930169012119 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 930169012120 oligomeric interface; other site 930169012121 putative active site [active] 930169012122 homodimer interface [polypeptide binding]; other site 930169012123 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 930169012124 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 930169012125 N-terminal plug; other site 930169012126 ligand-binding site [chemical binding]; other site 930169012127 fec operon regulator FecR; Reviewed; Region: PRK09774 930169012128 FecR protein; Region: FecR; pfam04773 930169012129 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169012130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169012131 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 930169012132 DNA binding residues [nucleotide binding] 930169012133 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169012134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169012135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169012136 NnrU protein; Region: NnrU; pfam07298 930169012137 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 930169012138 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 930169012139 N-terminal plug; other site 930169012140 ligand-binding site [chemical binding]; other site 930169012141 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169012142 FecR protein; Region: FecR; pfam04773 930169012143 RNA polymerase sigma factor; Provisional; Region: PRK12528 930169012144 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169012145 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 930169012146 DNA binding residues [nucleotide binding] 930169012147 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 930169012148 putative deacylase active site [active] 930169012149 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 930169012150 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930169012151 diaminopimelate decarboxylase; Region: lysA; TIGR01048 930169012152 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 930169012153 active site 930169012154 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169012155 substrate binding site [chemical binding]; other site 930169012156 catalytic residues [active] 930169012157 dimer interface [polypeptide binding]; other site 930169012158 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 930169012159 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 930169012160 Serine hydrolase (FSH1); Region: FSH1; pfam03959 930169012161 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 930169012162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169012163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169012164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169012165 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 930169012166 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 930169012167 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 930169012168 Protein of unknown function, DUF484; Region: DUF484; cl17449 930169012169 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 930169012170 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 930169012171 active site 930169012172 DNA binding site [nucleotide binding] 930169012173 Int/Topo IB signature motif; other site 930169012174 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 930169012175 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 930169012176 motif II; other site 930169012177 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 930169012178 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 930169012179 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 930169012180 conserved cys residue [active] 930169012181 Protein of unknown function (DUF502); Region: DUF502; cl01107 930169012182 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 930169012183 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 930169012184 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 930169012185 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 930169012186 dimer interface [polypeptide binding]; other site 930169012187 allosteric magnesium binding site [ion binding]; other site 930169012188 active site 930169012189 aspartate-rich active site metal binding site; other site 930169012190 Schiff base residues; other site 930169012191 polyphosphate kinase; Provisional; Region: PRK05443 930169012192 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 930169012193 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 930169012194 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 930169012195 putative domain interface [polypeptide binding]; other site 930169012196 putative active site [active] 930169012197 catalytic site [active] 930169012198 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 930169012199 putative domain interface [polypeptide binding]; other site 930169012200 putative active site [active] 930169012201 catalytic site [active] 930169012202 exopolyphosphatase; Provisional; Region: PRK10854 930169012203 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 930169012204 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 930169012205 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 930169012206 catalytic residues [active] 930169012207 transcription termination factor Rho; Provisional; Region: rho; PRK09376 930169012208 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 930169012209 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 930169012210 RNA binding site [nucleotide binding]; other site 930169012211 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 930169012212 multimer interface [polypeptide binding]; other site 930169012213 Walker A motif; other site 930169012214 ATP binding site [chemical binding]; other site 930169012215 Walker B motif; other site 930169012216 Isochorismatase family; Region: Isochorismatase; pfam00857 930169012217 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 930169012218 catalytic triad [active] 930169012219 dimer interface [polypeptide binding]; other site 930169012220 conserved cis-peptide bond; other site 930169012221 LysR family transcriptional regulator; Provisional; Region: PRK14997 930169012222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169012223 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 930169012224 putative effector binding pocket; other site 930169012225 putative dimerization interface [polypeptide binding]; other site 930169012226 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 930169012227 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 930169012228 short chain dehydrogenase; Provisional; Region: PRK06197 930169012229 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 930169012230 putative NAD(P) binding site [chemical binding]; other site 930169012231 active site 930169012232 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 930169012233 FAD binding domain; Region: FAD_binding_4; pfam01565 930169012234 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 930169012235 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 930169012236 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 930169012237 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169012238 catalytic residue [active] 930169012239 inner membrane protein; Provisional; Region: PRK11715 930169012240 sensory histidine kinase CreC; Provisional; Region: PRK11100 930169012241 HAMP domain; Region: HAMP; pfam00672 930169012242 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 930169012243 phosphorylation site [posttranslational modification] 930169012244 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 930169012245 ATP binding site [chemical binding]; other site 930169012246 Mg2+ binding site [ion binding]; other site 930169012247 G-X-G motif; other site 930169012248 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 930169012249 DNA-binding response regulator CreB; Provisional; Region: PRK11083 930169012250 active site 930169012251 phosphorylation site [posttranslational modification] 930169012252 intermolecular recognition site; other site 930169012253 dimerization interface [polypeptide binding]; other site 930169012254 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 930169012255 DNA binding site [nucleotide binding] 930169012256 Uncharacterized conserved protein [Function unknown]; Region: COG3268 930169012257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012258 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 930169012259 active site 930169012260 DctM-like transporters; Region: DctM; pfam06808 930169012261 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169012262 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 930169012263 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169012264 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 930169012265 Transcriptional regulators [Transcription]; Region: FadR; COG2186 930169012266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169012267 DNA-binding site [nucleotide binding]; DNA binding site 930169012268 FCD domain; Region: FCD; pfam07729 930169012269 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 930169012270 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 930169012271 active site 930169012272 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 930169012273 Amidase; Region: Amidase; pfam01425 930169012274 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 930169012275 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 930169012276 putative NAD(P) binding site [chemical binding]; other site 930169012277 dimer interface [polypeptide binding]; other site 930169012278 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169012279 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012280 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012281 acyl-activating enzyme (AAE) consensus motif; other site 930169012282 AMP binding site [chemical binding]; other site 930169012283 active site 930169012284 CoA binding site [chemical binding]; other site 930169012285 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 930169012286 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 930169012287 Phytase; Region: Phytase; cl17685 930169012288 Phytase; Region: Phytase; cl17685 930169012289 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 930169012290 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 930169012291 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 930169012292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169012293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169012294 metal binding site [ion binding]; metal-binding site 930169012295 active site 930169012296 I-site; other site 930169012297 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169012298 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169012299 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 930169012300 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 930169012301 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 930169012302 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 930169012303 S-adenosylmethionine binding site [chemical binding]; other site 930169012304 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 930169012305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 930169012306 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 930169012307 DNA binding residues [nucleotide binding] 930169012308 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 930169012309 FecR protein; Region: FecR; pfam04773 930169012310 Secretin and TonB N terminus short domain; Region: STN; smart00965 930169012311 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 930169012312 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 930169012313 N-terminal plug; other site 930169012314 ligand-binding site [chemical binding]; other site 930169012315 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 930169012316 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 930169012317 putative active site [active] 930169012318 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 930169012319 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 930169012320 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 930169012321 DNA binding residues [nucleotide binding] 930169012322 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 930169012323 dimer interface [polypeptide binding]; other site 930169012324 putative metal binding site [ion binding]; other site 930169012325 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 930169012326 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 930169012327 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 930169012328 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 930169012329 putative active site [active] 930169012330 metal binding site [ion binding]; metal-binding site 930169012331 Uncharacterized conserved protein [Function unknown]; Region: COG0397 930169012332 hypothetical protein; Validated; Region: PRK00029 930169012333 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 930169012334 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 930169012335 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169012336 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 930169012337 CoenzymeA binding site [chemical binding]; other site 930169012338 subunit interaction site [polypeptide binding]; other site 930169012339 PHB binding site; other site 930169012340 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 930169012341 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 930169012342 active site 930169012343 HIGH motif; other site 930169012344 dimer interface [polypeptide binding]; other site 930169012345 KMSKS motif; other site 930169012346 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 930169012347 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 930169012348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169012349 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 930169012350 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 930169012351 DNA binding site [nucleotide binding] 930169012352 active site 930169012353 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 930169012354 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 930169012355 classical (c) SDRs; Region: SDR_c; cd05233 930169012356 NAD(P) binding site [chemical binding]; other site 930169012357 active site 930169012358 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 930169012359 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169012360 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169012361 Serine hydrolase; Region: Ser_hydrolase; cl17834 930169012362 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 930169012363 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 930169012364 catalytic residue [active] 930169012365 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 930169012366 catalytic residues [active] 930169012367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169012368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169012369 peroxiredoxin; Region: AhpC; TIGR03137 930169012370 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 930169012371 dimer interface [polypeptide binding]; other site 930169012372 decamer (pentamer of dimers) interface [polypeptide binding]; other site 930169012373 catalytic triad [active] 930169012374 peroxidatic and resolving cysteines [active] 930169012375 Serine hydrolase; Region: Ser_hydrolase; pfam06821 930169012376 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 930169012377 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 930169012378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 930169012379 dimer interface [polypeptide binding]; other site 930169012380 putative CheW interface [polypeptide binding]; other site 930169012381 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 930169012382 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 930169012383 Multicopper oxidase; Region: Cu-oxidase; pfam00394 930169012384 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 930169012385 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 930169012386 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 930169012387 active site clefts [active] 930169012388 zinc binding site [ion binding]; other site 930169012389 dimer interface [polypeptide binding]; other site 930169012390 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 930169012391 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 930169012392 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012393 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 930169012394 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169012395 acyl-activating enzyme (AAE) consensus motif; other site 930169012396 putative AMP binding site [chemical binding]; other site 930169012397 putative active site [active] 930169012398 acyl-activating enzyme (AAE) consensus motif; other site 930169012399 putative CoA binding site [chemical binding]; other site 930169012400 CoA binding site [chemical binding]; other site 930169012401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169012402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169012403 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 930169012404 dimerization interface [polypeptide binding]; other site 930169012405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169012406 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 930169012407 DNA binding residues [nucleotide binding] 930169012408 dimerization interface [polypeptide binding]; other site 930169012409 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 930169012410 dimerization interface [polypeptide binding]; other site 930169012411 DNA binding residues [nucleotide binding] 930169012412 acyl-CoA synthetase; Validated; Region: PRK08162 930169012413 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 930169012414 acyl-activating enzyme (AAE) consensus motif; other site 930169012415 putative active site [active] 930169012416 AMP binding site [chemical binding]; other site 930169012417 putative CoA binding site [chemical binding]; other site 930169012418 Benzoate membrane transport protein; Region: BenE; pfam03594 930169012419 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169012420 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 930169012421 tetramerization interface [polypeptide binding]; other site 930169012422 NAD(P) binding site [chemical binding]; other site 930169012423 catalytic residues [active] 930169012424 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 930169012425 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 930169012426 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169012427 active site 930169012428 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 930169012429 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 930169012430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012431 NAD(P) binding site [chemical binding]; other site 930169012432 active site 930169012433 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 930169012434 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 930169012435 dimer interaction site [polypeptide binding]; other site 930169012436 substrate-binding tunnel; other site 930169012437 active site 930169012438 catalytic site [active] 930169012439 substrate binding site [chemical binding]; other site 930169012440 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 930169012441 Isochorismatase family; Region: Isochorismatase; pfam00857 930169012442 catalytic triad [active] 930169012443 dimer interface [polypeptide binding]; other site 930169012444 conserved cis-peptide bond; other site 930169012445 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 930169012446 PAS fold; Region: PAS_3; pfam08447 930169012447 putative active site [active] 930169012448 heme pocket [chemical binding]; other site 930169012449 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 930169012450 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 930169012451 putative active site [active] 930169012452 heme pocket [chemical binding]; other site 930169012453 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 930169012454 dimer interface [polypeptide binding]; other site 930169012455 phosphorylation site [posttranslational modification] 930169012456 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 930169012457 ATP binding site [chemical binding]; other site 930169012458 Mg2+ binding site [ion binding]; other site 930169012459 G-X-G motif; other site 930169012460 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 930169012461 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 930169012462 active site 930169012463 phosphorylation site [posttranslational modification] 930169012464 intermolecular recognition site; other site 930169012465 dimerization interface [polypeptide binding]; other site 930169012466 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 930169012467 DNA binding residues [nucleotide binding] 930169012468 dimerization interface [polypeptide binding]; other site 930169012469 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 930169012470 putative substrate translocation pore; other site 930169012471 Major Facilitator Superfamily; Region: MFS_1; pfam07690 930169012472 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 930169012473 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 930169012474 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 930169012475 membrane-bound complex binding site; other site 930169012476 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 930169012477 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 930169012478 dimer interface [polypeptide binding]; other site 930169012479 conserved gate region; other site 930169012480 putative PBP binding loops; other site 930169012481 ABC-ATPase subunit interface; other site 930169012482 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 930169012483 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 930169012484 Walker A/P-loop; other site 930169012485 ATP binding site [chemical binding]; other site 930169012486 Q-loop/lid; other site 930169012487 ABC transporter signature motif; other site 930169012488 Walker B; other site 930169012489 D-loop; other site 930169012490 H-loop/switch region; other site 930169012491 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 930169012492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 930169012493 DNA-binding site [nucleotide binding]; DNA binding site 930169012494 UTRA domain; Region: UTRA; pfam07702 930169012495 putative oxidoreductase; Provisional; Region: PRK08275 930169012496 L-aspartate oxidase; Provisional; Region: PRK06175 930169012497 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 930169012498 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 930169012499 HEAT repeats; Region: HEAT_2; pfam13646 930169012500 HEAT repeats; Region: HEAT_2; pfam13646 930169012501 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 930169012502 protein binding surface [polypeptide binding]; other site 930169012503 Ferredoxin [Energy production and conversion]; Region: COG1146 930169012504 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 930169012505 Protein of unknown function (DUF971); Region: DUF971; pfam06155 930169012506 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169012507 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 930169012508 FAD binding pocket [chemical binding]; other site 930169012509 FAD binding motif [chemical binding]; other site 930169012510 phosphate binding motif [ion binding]; other site 930169012511 beta-alpha-beta structure motif; other site 930169012512 NAD binding pocket [chemical binding]; other site 930169012513 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 930169012514 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 930169012515 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 930169012516 Predicted transcriptional regulator [Transcription]; Region: COG1959 930169012517 Transcriptional regulator; Region: Rrf2; pfam02082 930169012518 cobyric acid synthase; Provisional; Region: PRK00784 930169012519 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 930169012520 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 930169012521 catalytic triad [active] 930169012522 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 930169012523 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 930169012524 homodimer interface [polypeptide binding]; other site 930169012525 Walker A motif; other site 930169012526 ATP binding site [chemical binding]; other site 930169012527 hydroxycobalamin binding site [chemical binding]; other site 930169012528 Walker B motif; other site 930169012529 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 930169012530 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 930169012531 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 930169012532 catalytic triad [active] 930169012533 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 930169012534 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 930169012535 Walker A/P-loop; other site 930169012536 ATP binding site [chemical binding]; other site 930169012537 Q-loop/lid; other site 930169012538 ABC transporter signature motif; other site 930169012539 Walker B; other site 930169012540 D-loop; other site 930169012541 H-loop/switch region; other site 930169012542 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 930169012543 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 930169012544 dimer interface [polypeptide binding]; other site 930169012545 putative PBP binding regions; other site 930169012546 ABC-ATPase subunit interface; other site 930169012547 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 930169012548 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 930169012549 cobalamin binding residues [chemical binding]; other site 930169012550 putative BtuC binding residues; other site 930169012551 dimer interface [polypeptide binding]; other site 930169012552 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 930169012553 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 930169012554 N-terminal plug; other site 930169012555 ligand-binding site [chemical binding]; other site 930169012556 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 930169012557 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 930169012558 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 930169012559 catalytic residue [active] 930169012560 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 930169012561 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 930169012562 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 930169012563 putative dimer interface [polypeptide binding]; other site 930169012564 active site pocket [active] 930169012565 putative cataytic base [active] 930169012566 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 930169012567 catalytic core [active] 930169012568 cobalamin synthase; Reviewed; Region: cobS; PRK00235 930169012569 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 930169012570 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 930169012571 S-adenosylmethionine binding site [chemical binding]; other site 930169012572 HAMP domain; Region: HAMP; pfam00672 930169012573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169012574 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 930169012575 dimer interface [polypeptide binding]; other site 930169012576 phosphorylation site [posttranslational modification] 930169012577 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 930169012578 ATP binding site [chemical binding]; other site 930169012579 Mg2+ binding site [ion binding]; other site 930169012580 G-X-G motif; other site 930169012581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169012582 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 930169012583 active site 930169012584 phosphorylation site [posttranslational modification] 930169012585 intermolecular recognition site; other site 930169012586 dimerization interface [polypeptide binding]; other site 930169012587 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 930169012588 DNA binding site [nucleotide binding] 930169012589 PhoD-like phosphatase; Region: PhoD; pfam09423 930169012590 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 930169012591 putative active site [active] 930169012592 putative metal binding site [ion binding]; other site 930169012593 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 930169012594 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 930169012595 active site 930169012596 metal binding site [ion binding]; metal-binding site 930169012597 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 930169012598 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 930169012599 homotrimer interface [polypeptide binding]; other site 930169012600 Walker A motif; other site 930169012601 GTP binding site [chemical binding]; other site 930169012602 Walker B motif; other site 930169012603 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 930169012604 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 930169012605 FMN binding site [chemical binding]; other site 930169012606 substrate binding site [chemical binding]; other site 930169012607 putative catalytic residue [active] 930169012608 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169012609 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169012610 WHG domain; Region: WHG; pfam13305 930169012611 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169012612 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169012613 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 930169012614 classical (c) SDRs; Region: SDR_c; cd05233 930169012615 NAD(P) binding site [chemical binding]; other site 930169012616 active site 930169012617 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 930169012618 Predicted membrane protein [Function unknown]; Region: COG3671 930169012619 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 930169012620 Uncharacterized conserved protein [Function unknown]; Region: COG0432 930169012621 glycerate dehydrogenase; Provisional; Region: PRK06487 930169012622 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 930169012623 putative ligand binding site [chemical binding]; other site 930169012624 putative NAD binding site [chemical binding]; other site 930169012625 catalytic site [active] 930169012626 Protein of unknown function (DUF523); Region: DUF523; pfam04463 930169012627 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 930169012628 arginine decarboxylase; Provisional; Region: PRK05354 930169012629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 930169012630 dimer interface [polypeptide binding]; other site 930169012631 active site 930169012632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 930169012633 catalytic residues [active] 930169012634 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 930169012635 spermidine synthase; Provisional; Region: PRK00811 930169012636 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 930169012637 S-adenosylmethionine binding site [chemical binding]; other site 930169012638 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 930169012639 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 930169012640 putative catalytic residue [active] 930169012641 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 930169012642 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 930169012643 putative NAD(P) binding site [chemical binding]; other site 930169012644 active site 930169012645 Predicted transcriptional regulators [Transcription]; Region: COG1733 930169012646 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 930169012647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169012648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169012649 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 930169012650 substrate binding pocket [chemical binding]; other site 930169012651 dimerization interface [polypeptide binding]; other site 930169012652 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 930169012653 catalytic core [active] 930169012654 short chain dehydrogenase; Provisional; Region: PRK08251 930169012655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012656 NAD(P) binding site [chemical binding]; other site 930169012657 active site 930169012658 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169012659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169012660 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169012661 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169012662 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 930169012663 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 930169012664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 930169012665 HAMP domain; Region: HAMP; pfam00672 930169012666 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 930169012667 dimer interface [polypeptide binding]; other site 930169012668 phosphorylation site [posttranslational modification] 930169012669 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 930169012670 ATP binding site [chemical binding]; other site 930169012671 Mg2+ binding site [ion binding]; other site 930169012672 G-X-G motif; other site 930169012673 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169012674 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 930169012675 active site 930169012676 phosphorylation site [posttranslational modification] 930169012677 intermolecular recognition site; other site 930169012678 dimerization interface [polypeptide binding]; other site 930169012679 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 930169012680 DNA binding site [nucleotide binding] 930169012681 Transposase domain (DUF772); Region: DUF772; pfam05598 930169012682 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 930169012683 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 930169012684 Nitrogen regulatory protein P-II; Region: P-II; smart00938 930169012685 Membrane fusogenic activity; Region: BMFP; pfam04380 930169012686 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 930169012687 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 930169012688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169012689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169012690 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 930169012691 dimerization interface [polypeptide binding]; other site 930169012692 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 930169012693 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 930169012694 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 930169012695 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 930169012696 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 930169012697 EamA-like transporter family; Region: EamA; pfam00892 930169012698 EamA-like transporter family; Region: EamA; pfam00892 930169012699 Cupin domain; Region: Cupin_2; pfam07883 930169012700 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169012701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169012702 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 930169012703 classical (c) SDRs; Region: SDR_c; cd05233 930169012704 NAD(P) binding site [chemical binding]; other site 930169012705 active site 930169012706 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169012707 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169012708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169012709 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 930169012710 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 930169012711 RNA binding surface [nucleotide binding]; other site 930169012712 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 930169012713 active site 930169012714 uracil binding [chemical binding]; other site 930169012715 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 930169012716 Part of AAA domain; Region: AAA_19; pfam13245 930169012717 Family description; Region: UvrD_C_2; pfam13538 930169012718 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 930169012719 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 930169012720 CHASE2 domain; Region: CHASE2; pfam05226 930169012721 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 930169012722 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 930169012723 dimer interface [polypeptide binding]; other site 930169012724 phosphorylation site [posttranslational modification] 930169012725 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 930169012726 ATP binding site [chemical binding]; other site 930169012727 Mg2+ binding site [ion binding]; other site 930169012728 G-X-G motif; other site 930169012729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 930169012730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 930169012731 FecR protein; Region: FecR; pfam04773 930169012732 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 930169012733 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 930169012734 active site 930169012735 phosphorylation site [posttranslational modification] 930169012736 intermolecular recognition site; other site 930169012737 dimerization interface [polypeptide binding]; other site 930169012738 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 930169012739 DNA binding site [nucleotide binding] 930169012740 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 930169012741 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169012742 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 930169012743 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169012744 active site 930169012745 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 930169012746 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169012747 active site 930169012748 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169012749 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169012750 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169012751 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169012752 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012753 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169012754 acyl-activating enzyme (AAE) consensus motif; other site 930169012755 acyl-activating enzyme (AAE) consensus motif; other site 930169012756 putative AMP binding site [chemical binding]; other site 930169012757 putative active site [active] 930169012758 putative CoA binding site [chemical binding]; other site 930169012759 acyl-CoA synthetase; Validated; Region: PRK08316 930169012760 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012761 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169012762 acyl-activating enzyme (AAE) consensus motif; other site 930169012763 acyl-activating enzyme (AAE) consensus motif; other site 930169012764 putative AMP binding site [chemical binding]; other site 930169012765 putative active site [active] 930169012766 putative CoA binding site [chemical binding]; other site 930169012767 DctM-like transporters; Region: DctM; pfam06808 930169012768 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169012769 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169012770 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 930169012771 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 930169012772 dimer interface [polypeptide binding]; other site 930169012773 acyl-activating enzyme (AAE) consensus motif; other site 930169012774 putative active site [active] 930169012775 AMP binding site [chemical binding]; other site 930169012776 putative CoA binding site [chemical binding]; other site 930169012777 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 930169012778 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 930169012779 dimer interface [polypeptide binding]; other site 930169012780 active site 930169012781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012782 NAD(P) binding site [chemical binding]; other site 930169012783 active site 930169012784 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 930169012785 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 930169012786 DNA binding residues [nucleotide binding] 930169012787 dimerization interface [polypeptide binding]; other site 930169012788 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 930169012789 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 930169012790 MOFRL family; Region: MOFRL; pfam05161 930169012791 enoyl-CoA hydratase; Provisional; Region: PRK07509 930169012792 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 930169012793 substrate binding site [chemical binding]; other site 930169012794 oxyanion hole (OAH) forming residues; other site 930169012795 trimer interface [polypeptide binding]; other site 930169012796 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 930169012797 short chain dehydrogenase; Provisional; Region: PRK07677 930169012798 NAD(P) binding site [chemical binding]; other site 930169012799 substrate binding site [chemical binding]; other site 930169012800 homotetramer interface [polypeptide binding]; other site 930169012801 active site 930169012802 homodimer interface [polypeptide binding]; other site 930169012803 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 930169012804 CoA-transferase family III; Region: CoA_transf_3; pfam02515 930169012805 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 930169012806 active site 2 [active] 930169012807 active site 1 [active] 930169012808 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 930169012809 active site 2 [active] 930169012810 active site 1 [active] 930169012811 enoyl-CoA hydratase; Provisional; Region: PRK08140 930169012812 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 930169012813 substrate binding site [chemical binding]; other site 930169012814 oxyanion hole (OAH) forming residues; other site 930169012815 trimer interface [polypeptide binding]; other site 930169012816 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169012817 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 930169012818 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 930169012819 active site 930169012820 Phosphotransferase enzyme family; Region: APH; pfam01636 930169012821 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 930169012822 putative active site [active] 930169012823 putative substrate binding site [chemical binding]; other site 930169012824 ATP binding site [chemical binding]; other site 930169012825 enoyl-CoA hydratase; Provisional; Region: PRK06688 930169012826 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 930169012827 substrate binding site [chemical binding]; other site 930169012828 oxyanion hole (OAH) forming residues; other site 930169012829 trimer interface [polypeptide binding]; other site 930169012830 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 930169012831 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 930169012832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012833 NAD(P) binding site [chemical binding]; other site 930169012834 active site 930169012835 enoyl-CoA hydratase; Provisional; Region: PRK08260 930169012836 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 930169012837 substrate binding site [chemical binding]; other site 930169012838 oxyanion hole (OAH) forming residues; other site 930169012839 trimer interface [polypeptide binding]; other site 930169012840 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 930169012841 putative FMN binding site [chemical binding]; other site 930169012842 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 930169012843 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 930169012844 putative DNA binding site [nucleotide binding]; other site 930169012845 putative Zn2+ binding site [ion binding]; other site 930169012846 AsnC family; Region: AsnC_trans_reg; pfam01037 930169012847 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 930169012848 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169012849 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 930169012850 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169012851 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169012852 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169012853 acyl-activating enzyme (AAE) consensus motif; other site 930169012854 AMP binding site [chemical binding]; other site 930169012855 active site 930169012856 CoA binding site [chemical binding]; other site 930169012857 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 930169012858 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 930169012859 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 930169012860 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 930169012861 Active_site [active] 930169012862 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 930169012863 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 930169012864 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 930169012865 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 930169012866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 930169012867 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169012868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 930169012869 PGAP1-like protein; Region: PGAP1; pfam07819 930169012870 Methyltransferase domain; Region: Methyltransf_23; pfam13489 930169012871 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 930169012872 hypothetical protein; Provisional; Region: PRK03757 930169012873 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 930169012874 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 930169012875 Coenzyme A binding pocket [chemical binding]; other site 930169012876 short chain dehydrogenase; Provisional; Region: PRK06181 930169012877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169012878 NAD(P) binding site [chemical binding]; other site 930169012879 active site 930169012880 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 930169012881 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 930169012882 putative NAD(P) binding site [chemical binding]; other site 930169012883 active site 930169012884 putative substrate binding site [chemical binding]; other site 930169012885 bile acid transporter; Region: bass; TIGR00841 930169012886 Sodium Bile acid symporter family; Region: SBF; cl17470 930169012887 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 930169012888 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169012889 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 930169012890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169012891 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 930169012892 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 930169012893 homodimer interface [polypeptide binding]; other site 930169012894 substrate-cofactor binding pocket; other site 930169012895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 930169012896 catalytic residue [active] 930169012897 enoyl-CoA hydratase; Provisional; Region: PRK08260 930169012898 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 930169012899 substrate binding site [chemical binding]; other site 930169012900 oxyanion hole (OAH) forming residues; other site 930169012901 trimer interface [polypeptide binding]; other site 930169012902 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 930169012903 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169012904 Protein of unknown function (DUF962); Region: DUF962; cl01879 930169012905 FOG: CBS domain [General function prediction only]; Region: COG0517 930169012906 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_16; cd04629 930169012907 AAA domain; Region: AAA_22; pfam13401 930169012908 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 930169012909 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930169012910 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 930169012911 Helix-turn-helix domain; Region: HTH_18; pfam12833 930169012912 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 930169012913 Beta-lactamase; Region: Beta-lactamase; pfam00144 930169012914 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169012915 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169012916 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 930169012917 catalytic triad [active] 930169012918 dimer interface [polypeptide binding]; other site 930169012919 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 930169012920 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 930169012921 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 930169012922 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 930169012923 Protein export membrane protein; Region: SecD_SecF; cl14618 930169012924 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169012925 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 930169012926 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169012927 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 930169012928 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 930169012929 tetramer interface [polypeptide binding]; other site 930169012930 heme binding pocket [chemical binding]; other site 930169012931 NADPH binding site [chemical binding]; other site 930169012932 Haemolysin-III related; Region: HlyIII; cl03831 930169012933 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 930169012934 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 930169012935 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 930169012936 N-terminal plug; other site 930169012937 ligand-binding site [chemical binding]; other site 930169012938 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 930169012939 catalytic residues [active] 930169012940 dimer interface [polypeptide binding]; other site 930169012941 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 930169012942 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 930169012943 potential catalytic triad [active] 930169012944 conserved cys residue [active] 930169012945 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 930169012946 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 930169012947 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 930169012948 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 930169012949 DNA binding residues [nucleotide binding] 930169012950 dimerization interface [polypeptide binding]; other site 930169012951 Cytochrome c; Region: Cytochrom_C; cl11414 930169012952 NosL; Region: NosL; pfam05573 930169012953 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 930169012954 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930169012955 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 930169012956 Walker A/P-loop; other site 930169012957 ATP binding site [chemical binding]; other site 930169012958 Q-loop/lid; other site 930169012959 ABC transporter signature motif; other site 930169012960 Walker B; other site 930169012961 D-loop; other site 930169012962 H-loop/switch region; other site 930169012963 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 930169012964 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 930169012965 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 930169012966 nitrous-oxide reductase; Validated; Region: PRK02888 930169012967 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 930169012968 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 930169012969 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 930169012970 4Fe-4S binding domain; Region: Fer4_5; pfam12801 930169012971 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 930169012972 putative catalytic site [active] 930169012973 putative metal binding site [ion binding]; other site 930169012974 putative phosphate binding site [ion binding]; other site 930169012975 putative catalytic site [active] 930169012976 putative phosphate binding site [ion binding]; other site 930169012977 putative metal binding site [ion binding]; other site 930169012978 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 930169012979 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 930169012980 catalytic residues [active] 930169012981 hinge region; other site 930169012982 alpha helical domain; other site 930169012983 Cytochrome c553 [Energy production and conversion]; Region: COG2863 930169012984 Cytochrome c; Region: Cytochrom_C; cl11414 930169012985 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 930169012986 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 930169012987 G1 box; other site 930169012988 GTP/Mg2+ binding site [chemical binding]; other site 930169012989 Switch I region; other site 930169012990 G2 box; other site 930169012991 G3 box; other site 930169012992 Switch II region; other site 930169012993 G4 box; other site 930169012994 G5 box; other site 930169012995 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 930169012996 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 930169012997 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 930169012998 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 930169012999 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930169013000 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 930169013001 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 930169013002 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 930169013003 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 930169013004 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 930169013005 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 930169013006 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 930169013007 G1 box; other site 930169013008 GTP/Mg2+ binding site [chemical binding]; other site 930169013009 G2 box; other site 930169013010 Switch I region; other site 930169013011 G3 box; other site 930169013012 Switch II region; other site 930169013013 G4 box; other site 930169013014 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 930169013015 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 930169013016 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 930169013017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169013018 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 930169013019 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 930169013020 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 930169013021 tetrameric interface [polypeptide binding]; other site 930169013022 NAD binding site [chemical binding]; other site 930169013023 catalytic residues [active] 930169013024 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 930169013025 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 930169013026 substrate binding pocket [chemical binding]; other site 930169013027 FAD binding site [chemical binding]; other site 930169013028 catalytic base [active] 930169013029 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 930169013030 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 930169013031 substrate binding site [chemical binding]; other site 930169013032 oxyanion hole (OAH) forming residues; other site 930169013033 trimer interface [polypeptide binding]; other site 930169013034 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 930169013035 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 930169013036 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 930169013037 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 930169013038 classical (c) SDRs; Region: SDR_c; cd05233 930169013039 NAD(P) binding site [chemical binding]; other site 930169013040 active site 930169013041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169013042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169013043 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 930169013044 putative dimerization interface [polypeptide binding]; other site 930169013045 DctM-like transporters; Region: DctM; pfam06808 930169013046 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 930169013047 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 930169013048 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 930169013049 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169013050 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 930169013051 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 930169013052 motif II; other site 930169013053 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 930169013054 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 930169013055 DNA binding residues [nucleotide binding] 930169013056 dimer interface [polypeptide binding]; other site 930169013057 [2Fe-2S] cluster binding site [ion binding]; other site 930169013058 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 930169013059 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 930169013060 Walker A/P-loop; other site 930169013061 ATP binding site [chemical binding]; other site 930169013062 Q-loop/lid; other site 930169013063 ABC transporter signature motif; other site 930169013064 Walker B; other site 930169013065 D-loop; other site 930169013066 H-loop/switch region; other site 930169013067 ABC-2 type transporter; Region: ABC2_membrane; cl17235 930169013068 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 930169013069 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 930169013070 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 930169013071 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 930169013072 putative C-terminal domain interface [polypeptide binding]; other site 930169013073 putative GSH binding site (G-site) [chemical binding]; other site 930169013074 putative dimer interface [polypeptide binding]; other site 930169013075 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 930169013076 putative N-terminal domain interface [polypeptide binding]; other site 930169013077 putative dimer interface [polypeptide binding]; other site 930169013078 putative substrate binding pocket (H-site) [chemical binding]; other site 930169013079 Mechanosensitive ion channel; Region: MS_channel; pfam00924 930169013080 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 930169013081 catalytic triad [active] 930169013082 dimer interface [polypeptide binding]; other site 930169013083 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 930169013084 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 930169013085 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 930169013086 metal ion-dependent adhesion site (MIDAS); other site 930169013087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 930169013088 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 930169013089 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 930169013090 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 930169013091 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 930169013092 non-specific DNA binding site [nucleotide binding]; other site 930169013093 salt bridge; other site 930169013094 sequence-specific DNA binding site [nucleotide binding]; other site 930169013095 hypothetical protein; Provisional; Region: PRK02135 930169013096 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 930169013097 DNA polymerase I; Provisional; Region: PRK05755 930169013098 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 930169013099 active site 930169013100 metal binding site 1 [ion binding]; metal-binding site 930169013101 putative 5' ssDNA interaction site; other site 930169013102 metal binding site 3; metal-binding site 930169013103 metal binding site 2 [ion binding]; metal-binding site 930169013104 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 930169013105 putative DNA binding site [nucleotide binding]; other site 930169013106 putative metal binding site [ion binding]; other site 930169013107 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 930169013108 active site 930169013109 catalytic site [active] 930169013110 substrate binding site [chemical binding]; other site 930169013111 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 930169013112 active site 930169013113 DNA binding site [nucleotide binding] 930169013114 catalytic site [active] 930169013115 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 930169013116 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 930169013117 Phosphotransferase enzyme family; Region: APH; pfam01636 930169013118 active site 930169013119 substrate binding site [chemical binding]; other site 930169013120 ATP binding site [chemical binding]; other site 930169013121 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 930169013122 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 930169013123 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 930169013124 intersubunit interface [polypeptide binding]; other site 930169013125 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 930169013126 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 930169013127 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 930169013128 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 930169013129 ABC-ATPase subunit interface; other site 930169013130 dimer interface [polypeptide binding]; other site 930169013131 putative PBP binding regions; other site 930169013132 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 930169013133 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 930169013134 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 930169013135 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 930169013136 MOSC domain; Region: MOSC; pfam03473 930169013137 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 930169013138 conserved cys residue [active] 930169013139 putative acetyltransferase; Provisional; Region: PRK03624 930169013140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 930169013141 Coenzyme A binding pocket [chemical binding]; other site 930169013142 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 930169013143 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 930169013144 S-adenosylmethionine binding site [chemical binding]; other site 930169013145 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_7; cd08353 930169013146 putative dimer interface [polypeptide binding]; other site 930169013147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169013148 Isochorismatase family; Region: Isochorismatase; pfam00857 930169013149 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 930169013150 catalytic triad [active] 930169013151 conserved cis-peptide bond; other site 930169013152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 930169013153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169013154 LysR substrate binding domain; Region: LysR_substrate; pfam03466 930169013155 dimerization interface [polypeptide binding]; other site 930169013156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 930169013157 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_10; cd07251 930169013158 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 930169013159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 930169013160 Rubredoxin [Energy production and conversion]; Region: COG1773 930169013161 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 930169013162 iron binding site [ion binding]; other site 930169013163 Chorismate lyase; Region: Chor_lyase; cl01230 930169013164 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 930169013165 UbiA prenyltransferase family; Region: UbiA; pfam01040 930169013166 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 930169013167 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 930169013168 active site 930169013169 phosphorylation site [posttranslational modification] 930169013170 intermolecular recognition site; other site 930169013171 dimerization interface [polypeptide binding]; other site 930169013172 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 930169013173 DNA binding site [nucleotide binding] 930169013174 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 930169013175 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 930169013176 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 930169013177 putative active site [active] 930169013178 heme pocket [chemical binding]; other site 930169013179 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 930169013180 dimer interface [polypeptide binding]; other site 930169013181 phosphorylation site [posttranslational modification] 930169013182 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 930169013183 ATP binding site [chemical binding]; other site 930169013184 Mg2+ binding site [ion binding]; other site 930169013185 G-X-G motif; other site 930169013186 SlyX; Region: SlyX; pfam04102 930169013187 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 930169013188 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 930169013189 WHG domain; Region: WHG; pfam13305 930169013190 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 930169013191 Predicted membrane protein [Function unknown]; Region: COG2119 930169013192 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 930169013193 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 930169013194 YaeQ protein; Region: YaeQ; pfam07152 930169013195 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 930169013196 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 930169013197 arsenical pump membrane protein; Provisional; Region: PRK15445 930169013198 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 930169013199 transmembrane helices; other site 930169013200 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 930169013201 Low molecular weight phosphatase family; Region: LMWPc; cd00115 930169013202 active site 930169013203 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 930169013204 dimerization interface [polypeptide binding]; other site 930169013205 putative DNA binding site [nucleotide binding]; other site 930169013206 putative Zn2+ binding site [ion binding]; other site 930169013207 transcriptional regulator PhoU; Provisional; Region: PRK11115 930169013208 PhoU domain; Region: PhoU; pfam01895 930169013209 PhoU domain; Region: PhoU; pfam01895 930169013210 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 930169013211 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 930169013212 Walker A/P-loop; other site 930169013213 ATP binding site [chemical binding]; other site 930169013214 Q-loop/lid; other site 930169013215 ABC transporter signature motif; other site 930169013216 Walker B; other site 930169013217 D-loop; other site 930169013218 H-loop/switch region; other site 930169013219 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 930169013220 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 930169013221 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 930169013222 ABC-ATPase subunit interface; other site 930169013223 putative PBP binding loops; other site 930169013224 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 930169013225 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 930169013226 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 930169013227 dimer interface [polypeptide binding]; other site 930169013228 conserved gate region; other site 930169013229 putative PBP binding loops; other site 930169013230 ABC-ATPase subunit interface; other site 930169013231 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 930169013232 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 930169013233 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 930169013234 DctM-like transporters; Region: DctM; pfam06808 930169013235 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 930169013236 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 930169013237 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 930169013238 Part of AAA domain; Region: AAA_19; pfam13245 930169013239 Family description; Region: UvrD_C_2; pfam13538 930169013240 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 930169013241 putative active site [active] 930169013242 PAS fold; Region: PAS_3; pfam08447 930169013243 heme pocket [chemical binding]; other site 930169013244 PAS domain S-box; Region: sensory_box; TIGR00229 930169013245 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 930169013246 putative active site [active] 930169013247 heme pocket [chemical binding]; other site 930169013248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 930169013249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 930169013250 metal binding site [ion binding]; metal-binding site 930169013251 active site 930169013252 I-site; other site 930169013253 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 930169013254 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 930169013255 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 930169013256 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 930169013257 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 930169013258 Walker A motif; other site 930169013259 ATP binding site [chemical binding]; other site 930169013260 Walker B motif; other site 930169013261 arginine finger; other site 930169013262 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 930169013263 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 930169013264 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 930169013265 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 930169013266 Trp docking motif [polypeptide binding]; other site 930169013267 cytochrome domain interface [polypeptide binding]; other site 930169013268 active site 930169013269 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 930169013270 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 930169013271 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 930169013272 NAD(P) binding site [chemical binding]; other site 930169013273 catalytic residues [active] 930169013274 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 930169013275 protein binding site [polypeptide binding]; other site 930169013276 Putative periplasmic lipoprotein; Region: DUF1425; cl12345 930169013277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 930169013278 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 930169013279 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 930169013280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169013281 Walker A/P-loop; other site 930169013282 ATP binding site [chemical binding]; other site 930169013283 Q-loop/lid; other site 930169013284 ABC transporter signature motif; other site 930169013285 Walker B; other site 930169013286 D-loop; other site 930169013287 H-loop/switch region; other site 930169013288 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 930169013289 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 930169013290 Walker A/P-loop; other site 930169013291 ATP binding site [chemical binding]; other site 930169013292 Q-loop/lid; other site 930169013293 ABC transporter signature motif; other site 930169013294 Walker B; other site 930169013295 D-loop; other site 930169013296 H-loop/switch region; other site 930169013297 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 930169013298 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 930169013299 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 930169013300 dimer interface [polypeptide binding]; other site 930169013301 conserved gate region; other site 930169013302 putative PBP binding loops; other site 930169013303 ABC-ATPase subunit interface; other site 930169013304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 930169013305 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 930169013306 dimer interface [polypeptide binding]; other site 930169013307 conserved gate region; other site 930169013308 putative PBP binding loops; other site 930169013309 ABC-ATPase subunit interface; other site 930169013310 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_7; cd08512 930169013311 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 930169013312 short chain dehydrogenase; Validated; Region: PRK05855 930169013313 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 930169013314 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 930169013315 classical (c) SDRs; Region: SDR_c; cd05233 930169013316 NAD(P) binding site [chemical binding]; other site 930169013317 active site 930169013318 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 930169013319 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 930169013320 DNA binding residues [nucleotide binding] 930169013321 putative dimer interface [polypeptide binding]; other site 930169013322 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 930169013323 Fatty acid desaturase; Region: FA_desaturase; pfam00487 930169013324 Di-iron ligands [ion binding]; other site 930169013325 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 930169013326 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 930169013327 NAD(P) binding site [chemical binding]; other site 930169013328 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 930169013329 active site 930169013330 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 930169013331 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 930169013332 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 930169013333 acyl-activating enzyme (AAE) consensus motif; other site 930169013334 putative AMP binding site [chemical binding]; other site 930169013335 putative active site [active] 930169013336 putative CoA binding site [chemical binding]; other site 930169013337 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 930169013338 putative active site [active] 930169013339 catalytic site [active] 930169013340 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 930169013341 PLD-like domain; Region: PLDc_2; pfam13091 930169013342 putative active site [active] 930169013343 catalytic site [active] 930169013344 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 930169013345 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 930169013346 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 930169013347 methionine sulfoxide reductase B; Provisional; Region: PRK00222 930169013348 SelR domain; Region: SelR; pfam01641 930169013349 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 930169013350 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 930169013351 active site 930169013352 metal binding site [ion binding]; metal-binding site 930169013353 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 930169013354 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 930169013355 glutathionine S-transferase; Provisional; Region: PRK10542 930169013356 C-terminal domain interface [polypeptide binding]; other site 930169013357 GSH binding site (G-site) [chemical binding]; other site 930169013358 dimer interface [polypeptide binding]; other site 930169013359 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 930169013360 dimer interface [polypeptide binding]; other site 930169013361 N-terminal domain interface [polypeptide binding]; other site 930169013362 substrate binding pocket (H-site) [chemical binding]; other site 930169013363 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 930169013364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 930169013365 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 930169013366 dimerization interface [polypeptide binding]; other site 930169013367 substrate binding pocket [chemical binding]; other site 930169013368 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 930169013369 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 930169013370 dihydroorotase; Provisional; Region: PRK09237 930169013371 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 930169013372 active site 930169013373 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 930169013374 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 930169013375 ligand binding site [chemical binding]; other site 930169013376 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 930169013377 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 930169013378 TM-ABC transporter signature motif; other site 930169013379 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 930169013380 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 930169013381 TM-ABC transporter signature motif; other site 930169013382 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 930169013383 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 930169013384 Walker A/P-loop; other site 930169013385 ATP binding site [chemical binding]; other site 930169013386 Q-loop/lid; other site 930169013387 ABC transporter signature motif; other site 930169013388 Walker B; other site 930169013389 D-loop; other site 930169013390 H-loop/switch region; other site 930169013391 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 930169013392 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 930169013393 Walker A/P-loop; other site 930169013394 ATP binding site [chemical binding]; other site 930169013395 Q-loop/lid; other site 930169013396 ABC transporter signature motif; other site 930169013397 Walker B; other site 930169013398 D-loop; other site 930169013399 H-loop/switch region; other site 930169013400 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 930169013401 Isochorismatase family; Region: Isochorismatase; pfam00857 930169013402 catalytic triad [active] 930169013403 conserved cis-peptide bond; other site 930169013404 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 930169013405 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 930169013406 FMN-binding pocket [chemical binding]; other site 930169013407 flavin binding motif; other site 930169013408 phosphate binding motif [ion binding]; other site 930169013409 beta-alpha-beta structure motif; other site 930169013410 NAD binding pocket [chemical binding]; other site 930169013411 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 930169013412 catalytic loop [active] 930169013413 iron binding site [ion binding]; other site 930169013414 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 930169013415 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 930169013416 [2Fe-2S] cluster binding site [ion binding]; other site 930169013417 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 930169013418 hydrophobic ligand binding site; other site 930169013419 Transcriptional regulators [Transcription]; Region: MarR; COG1846 930169013420 MarR family; Region: MarR; pfam01047 930169013421 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 930169013422 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 930169013423 gamma subunit interface [polypeptide binding]; other site 930169013424 epsilon subunit interface [polypeptide binding]; other site 930169013425 LBP interface [polypeptide binding]; other site 930169013426 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 930169013427 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 930169013428 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 930169013429 alpha subunit interaction interface [polypeptide binding]; other site 930169013430 Walker A motif; other site 930169013431 ATP binding site [chemical binding]; other site 930169013432 Walker B motif; other site 930169013433 inhibitor binding site; inhibition site 930169013434 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 930169013435 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 930169013436 core domain interface [polypeptide binding]; other site 930169013437 delta subunit interface [polypeptide binding]; other site 930169013438 epsilon subunit interface [polypeptide binding]; other site 930169013439 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 930169013440 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 930169013441 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 930169013442 beta subunit interaction interface [polypeptide binding]; other site 930169013443 Walker A motif; other site 930169013444 ATP binding site [chemical binding]; other site 930169013445 Walker B motif; other site 930169013446 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 930169013447 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 930169013448 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 930169013449 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 930169013450 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 930169013451 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 930169013452 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 930169013453 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 930169013454 ATP synthase I chain; Region: ATP_synt_I; cl09170 930169013455 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 930169013456 ParB-like nuclease domain; Region: ParBc; pfam02195 930169013457 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 930169013458 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 930169013459 P-loop; other site 930169013460 Magnesium ion binding site [ion binding]; other site 930169013461 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 930169013462 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 930169013463 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 930169013464 S-adenosylmethionine binding site [chemical binding]; other site 930169013465 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 930169013466 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 930169013467 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 930169013468 potassium/proton antiporter; Reviewed; Region: PRK05326 930169013469 Transporter associated domain; Region: CorC_HlyC; smart01091 930169013470 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 930169013471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 930169013472 NAD(P) binding site [chemical binding]; other site 930169013473 active site 930169013474 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 930169013475 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 930169013476 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 930169013477 active site 930169013478 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 930169013479 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 930169013480 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 930169013481 active site 930169013482 motif I; other site 930169013483 motif II; other site 930169013484 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 930169013485 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 930169013486 generic binding surface II; other site 930169013487 generic binding surface I; other site 930169013488 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 930169013489 putative active site [active] 930169013490 putative catalytic site [active] 930169013491 putative Mg binding site IVb [ion binding]; other site 930169013492 putative phosphate binding site [ion binding]; other site 930169013493 putative DNA binding site [nucleotide binding]; other site 930169013494 putative Mg binding site IVa [ion binding]; other site 930169013495 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 930169013496 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 930169013497 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 930169013498 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 930169013499 DNA-binding site [nucleotide binding]; DNA binding site 930169013500 RNA-binding motif; other site 930169013501 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 930169013502 glutamate dehydrogenase; Provisional; Region: PRK09414 930169013503 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 930169013504 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 930169013505 NAD(P) binding site [chemical binding]; other site 930169013506 Protein of unknown function DUF45; Region: DUF45; pfam01863 930169013507 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 930169013508 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 930169013509 HlyD family secretion protein; Region: HlyD_3; pfam13437 930169013510 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 930169013511 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 930169013512 dimer interface [polypeptide binding]; other site 930169013513 acyl-activating enzyme (AAE) consensus motif; other site 930169013514 putative active site [active] 930169013515 AMP binding site [chemical binding]; other site 930169013516 putative CoA binding site [chemical binding]; other site 930169013517 fumarate hydratase; Reviewed; Region: fumC; PRK00485 930169013518 Class II fumarases; Region: Fumarase_classII; cd01362 930169013519 active site 930169013520 tetramer interface [polypeptide binding]; other site 930169013521 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 930169013522 putative active site [active] 930169013523 putative catalytic site [active] 930169013524 Fic family protein [Function unknown]; Region: COG3177 930169013525 Fic/DOC family; Region: Fic; pfam02661 930169013526 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 930169013527 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 930169013528 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 930169013529 trmE is a tRNA modification GTPase; Region: trmE; cd04164 930169013530 G1 box; other site 930169013531 GTP/Mg2+ binding site [chemical binding]; other site 930169013532 Switch I region; other site 930169013533 G2 box; other site 930169013534 Switch II region; other site 930169013535 G3 box; other site 930169013536 G4 box; other site 930169013537 G5 box; other site 930169013538 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 930169013539 membrane protein insertase; Provisional; Region: PRK01318 930169013540 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 930169013541 Ribonuclease P; Region: Ribonuclease_P; cl00457