-- dump date 20140620_013658 -- class Genbank::misc_feature -- table misc_feature_note -- id note 390235000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 390235000002 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 390235000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235000004 Walker A motif; other site 390235000005 ATP binding site [chemical binding]; other site 390235000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 390235000007 Walker B motif; other site 390235000008 arginine finger; other site 390235000009 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 390235000010 DnaA box-binding interface [nucleotide binding]; other site 390235000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 390235000012 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 390235000013 putative DNA binding surface [nucleotide binding]; other site 390235000014 dimer interface [polypeptide binding]; other site 390235000015 beta-clamp/clamp loader binding surface; other site 390235000016 beta-clamp/translesion DNA polymerase binding surface; other site 390235000017 recombination protein F; Reviewed; Region: recF; PRK00064 390235000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235000019 Walker A/P-loop; other site 390235000020 ATP binding site [chemical binding]; other site 390235000021 Q-loop/lid; other site 390235000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235000023 ABC transporter signature motif; other site 390235000024 Walker B; other site 390235000025 D-loop; other site 390235000026 H-loop/switch region; other site 390235000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 390235000028 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 390235000029 Mg2+ binding site [ion binding]; other site 390235000030 G-X-G motif; other site 390235000031 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 390235000032 anchoring element; other site 390235000033 dimer interface [polypeptide binding]; other site 390235000034 ATP binding site [chemical binding]; other site 390235000035 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 390235000036 active site 390235000037 putative metal-binding site [ion binding]; other site 390235000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 390235000039 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 390235000040 Integrase core domain; Region: rve; pfam00665 390235000041 Bacterial TniB protein; Region: TniB; pfam05621 390235000042 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235000043 TniQ; Region: TniQ; pfam06527 390235000044 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235000045 Predicted metal-binding protein [General function prediction only]; Region: COG3019 390235000046 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235000047 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 390235000048 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 390235000049 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 390235000050 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 390235000051 Multicopper oxidase; Region: Cu-oxidase; pfam00394 390235000052 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 390235000053 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 390235000054 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235000055 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 390235000056 active site 390235000057 phosphorylation site [posttranslational modification] 390235000058 intermolecular recognition site; other site 390235000059 dimerization interface [polypeptide binding]; other site 390235000060 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 390235000061 DNA binding site [nucleotide binding] 390235000062 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235000063 HAMP domain; Region: HAMP; pfam00672 390235000064 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 390235000065 dimer interface [polypeptide binding]; other site 390235000066 phosphorylation site [posttranslational modification] 390235000067 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 390235000068 ATP binding site [chemical binding]; other site 390235000069 Mg2+ binding site [ion binding]; other site 390235000070 G-X-G motif; other site 390235000071 Outer membrane efflux protein; Region: OEP; pfam02321 390235000072 Outer membrane efflux protein; Region: OEP; pfam02321 390235000073 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 390235000074 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235000075 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 390235000076 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 390235000077 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 390235000078 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 390235000079 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 390235000080 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 390235000081 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 390235000082 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 390235000083 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 390235000084 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 390235000085 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 390235000086 metal-binding site [ion binding] 390235000087 YHS domain; Region: YHS; pfam04945 390235000088 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 390235000089 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235000090 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 390235000091 motif II; other site 390235000092 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 390235000093 ATP binding site [chemical binding]; other site 390235000094 Mg2+ binding site [ion binding]; other site 390235000095 G-X-G motif; other site 390235000096 NAD-dependent deacetylase; Provisional; Region: PRK00481 390235000097 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 390235000098 NAD+ binding site [chemical binding]; other site 390235000099 substrate binding site [chemical binding]; other site 390235000100 Zn binding site [ion binding]; other site 390235000101 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 390235000102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 390235000103 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 390235000104 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 390235000105 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 390235000106 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 390235000107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 390235000108 Transposase; Region: HTH_Tnp_1; pfam01527 390235000109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 390235000110 putative metal dependent hydrolase; Provisional; Region: PRK11598 390235000111 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 390235000112 Sulfatase; Region: Sulfatase; pfam00884 390235000113 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 390235000114 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 390235000115 hypothetical protein; Provisional; Region: PRK09272 390235000116 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235000117 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235000118 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 390235000119 active site 390235000120 phosphorylation site [posttranslational modification] 390235000121 intermolecular recognition site; other site 390235000122 dimerization interface [polypeptide binding]; other site 390235000123 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 390235000124 DNA binding site [nucleotide binding] 390235000125 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235000126 HAMP domain; Region: HAMP; pfam00672 390235000127 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 390235000128 dimer interface [polypeptide binding]; other site 390235000129 phosphorylation site [posttranslational modification] 390235000130 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 390235000131 ATP binding site [chemical binding]; other site 390235000132 Mg2+ binding site [ion binding]; other site 390235000133 G-X-G motif; other site 390235000134 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 390235000135 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 390235000136 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 390235000137 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 390235000138 Ligand binding site; other site 390235000139 Putative Catalytic site; other site 390235000140 DXD motif; other site 390235000141 Membrane protein of unknown function; Region: DUF360; pfam04020 390235000142 Predicted membrane protein [Function unknown]; Region: COG2246 390235000143 GtrA-like protein; Region: GtrA; pfam04138 390235000144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235000146 LysR substrate binding domain; Region: LysR_substrate; pfam03466 390235000147 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 390235000148 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 390235000149 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 390235000150 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235000151 Soluble P-type ATPase [General function prediction only]; Region: COG4087 390235000152 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235000153 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 390235000154 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 390235000155 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235000156 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 390235000157 outer membrane porin, OprD family; Region: OprD; pfam03573 390235000158 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235000159 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 390235000160 active site 390235000161 phosphorylation site [posttranslational modification] 390235000162 intermolecular recognition site; other site 390235000163 dimerization interface [polypeptide binding]; other site 390235000164 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 390235000165 DNA binding site [nucleotide binding] 390235000166 Predicted integral membrane protein [Function unknown]; Region: COG5455 390235000167 PAS fold; Region: PAS_4; pfam08448 390235000168 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 390235000169 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235000170 Walker A motif; other site 390235000171 ATP binding site [chemical binding]; other site 390235000172 Walker B motif; other site 390235000173 arginine finger; other site 390235000174 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235000175 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 390235000176 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 390235000177 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 390235000178 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235000179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235000180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000181 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 390235000182 dimerization interface [polypeptide binding]; other site 390235000183 choline dehydrogenase; Validated; Region: PRK02106 390235000184 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235000185 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 390235000186 putative substrate translocation pore; other site 390235000187 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 390235000188 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 390235000189 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 390235000190 putative acyl-acceptor binding pocket; other site 390235000191 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 390235000192 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 390235000193 active site 390235000194 motif I; other site 390235000195 motif II; other site 390235000196 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 390235000197 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 390235000198 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 390235000199 dimer interface [polypeptide binding]; other site 390235000200 motif 1; other site 390235000201 active site 390235000202 motif 2; other site 390235000203 motif 3; other site 390235000204 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 390235000205 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 390235000206 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 390235000207 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 390235000208 putative acyl-acceptor binding pocket; other site 390235000209 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 390235000210 TPR motif; other site 390235000211 binding surface 390235000212 K+ potassium transporter; Region: K_trans; cl15781 390235000213 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 390235000214 TrkA-N domain; Region: TrkA_N; pfam02254 390235000215 TrkA-C domain; Region: TrkA_C; pfam02080 390235000216 TrkA-N domain; Region: TrkA_N; pfam02254 390235000217 TrkA-C domain; Region: TrkA_C; pfam02080 390235000218 16S rRNA methyltransferase B; Provisional; Region: PRK10901 390235000219 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 390235000220 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 390235000221 S-adenosylmethionine binding site [chemical binding]; other site 390235000222 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 390235000223 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 390235000224 putative active site [active] 390235000225 substrate binding site [chemical binding]; other site 390235000226 putative cosubstrate binding site; other site 390235000227 catalytic site [active] 390235000228 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 390235000229 substrate binding site [chemical binding]; other site 390235000230 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 390235000231 active site 390235000232 catalytic residues [active] 390235000233 metal binding site [ion binding]; metal-binding site 390235000234 DNA protecting protein DprA; Region: dprA; TIGR00732 390235000235 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 390235000236 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 390235000237 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235000238 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 390235000239 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 390235000240 NADP binding site [chemical binding]; other site 390235000241 dimer interface [polypeptide binding]; other site 390235000242 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 390235000243 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 390235000244 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 390235000245 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 390235000246 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 390235000247 shikimate binding site; other site 390235000248 NAD(P) binding site [chemical binding]; other site 390235000249 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 390235000250 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 390235000251 Sulfate transporter family; Region: Sulfate_transp; pfam00916 390235000252 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 390235000253 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 390235000254 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 390235000255 Sulfatase; Region: Sulfatase; cl17466 390235000256 choline-sulfatase; Region: chol_sulfatase; TIGR03417 390235000257 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 390235000258 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 390235000259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000260 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 390235000261 dimerization interface [polypeptide binding]; other site 390235000262 substrate binding pocket [chemical binding]; other site 390235000263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235000264 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 390235000265 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 390235000266 substrate binding site [chemical binding]; other site 390235000267 active site 390235000268 catalytic residues [active] 390235000269 heterodimer interface [polypeptide binding]; other site 390235000270 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 390235000271 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 390235000272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235000273 catalytic residue [active] 390235000274 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235000275 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000276 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 390235000277 dimerization interface [polypeptide binding]; other site 390235000278 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 390235000279 Dodecin; Region: Dodecin; pfam07311 390235000280 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 390235000281 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 390235000282 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 390235000283 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 390235000284 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 390235000285 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 390235000286 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 390235000287 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 390235000288 Eukaryotic phosphomannomutase; Region: PMM; cl17107 390235000289 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 390235000290 motif II; other site 390235000291 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 390235000292 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 390235000293 trimer interface [polypeptide binding]; other site 390235000294 putative metal binding site [ion binding]; other site 390235000295 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 390235000296 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 390235000297 active site 390235000298 Zn binding site [ion binding]; other site 390235000299 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 390235000300 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 390235000301 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 390235000302 Zn binding site [ion binding]; other site 390235000303 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 390235000304 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 390235000305 FeS/SAM binding site; other site 390235000306 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 390235000307 active site clefts [active] 390235000308 zinc binding site [ion binding]; other site 390235000309 dimer interface [polypeptide binding]; other site 390235000310 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 390235000311 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 390235000312 Sulfate transporter family; Region: Sulfate_transp; pfam00916 390235000313 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 390235000314 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 390235000315 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 390235000316 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 390235000317 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235000318 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235000319 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 390235000320 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 390235000321 Subunit I/III interface [polypeptide binding]; other site 390235000322 D-pathway; other site 390235000323 Subunit I/VIIc interface [polypeptide binding]; other site 390235000324 Subunit I/IV interface [polypeptide binding]; other site 390235000325 Subunit I/II interface [polypeptide binding]; other site 390235000326 Low-spin heme (heme a) binding site [chemical binding]; other site 390235000327 Subunit I/VIIa interface [polypeptide binding]; other site 390235000328 Subunit I/VIa interface [polypeptide binding]; other site 390235000329 Dimer interface; other site 390235000330 Putative water exit pathway; other site 390235000331 Binuclear center (heme a3/CuB) [ion binding]; other site 390235000332 K-pathway; other site 390235000333 Subunit I/Vb interface [polypeptide binding]; other site 390235000334 Putative proton exit pathway; other site 390235000335 Subunit I/VIb interface; other site 390235000336 Subunit I/VIc interface [polypeptide binding]; other site 390235000337 Electron transfer pathway; other site 390235000338 Subunit I/VIIIb interface [polypeptide binding]; other site 390235000339 Subunit I/VIIb interface [polypeptide binding]; other site 390235000340 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 390235000341 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 390235000342 Subunit III/VIIa interface [polypeptide binding]; other site 390235000343 Phospholipid binding site [chemical binding]; other site 390235000344 Subunit I/III interface [polypeptide binding]; other site 390235000345 Subunit III/VIb interface [polypeptide binding]; other site 390235000346 Subunit III/VIa interface; other site 390235000347 Subunit III/Vb interface [polypeptide binding]; other site 390235000348 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 390235000349 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 390235000350 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 390235000351 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 390235000352 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 390235000353 UbiA prenyltransferase family; Region: UbiA; pfam01040 390235000354 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 390235000355 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 390235000356 Cu(I) binding site [ion binding]; other site 390235000357 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 390235000358 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235000359 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 390235000360 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 390235000361 active site 390235000362 Zn binding site [ion binding]; other site 390235000363 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235000364 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235000365 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 390235000366 Aspartase; Region: Aspartase; cd01357 390235000367 active sites [active] 390235000368 tetramer interface [polypeptide binding]; other site 390235000369 cell density-dependent motility repressor; Provisional; Region: PRK10082 390235000370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000371 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 390235000372 dimerization interface [polypeptide binding]; other site 390235000373 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 390235000374 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 390235000375 ATP-grasp domain; Region: ATP-grasp; pfam02222 390235000376 Predicted membrane protein [Function unknown]; Region: COG2261 390235000377 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 390235000378 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 390235000379 active site 390235000380 phosphate binding residues; other site 390235000381 catalytic residues [active] 390235000382 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 390235000383 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 390235000384 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235000385 putative substrate translocation pore; other site 390235000386 phosphate binding protein; Region: ptsS_2; TIGR02136 390235000387 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 390235000388 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 390235000389 dimer interface [polypeptide binding]; other site 390235000390 conserved gate region; other site 390235000391 putative PBP binding loops; other site 390235000392 ABC-ATPase subunit interface; other site 390235000393 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 390235000394 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 390235000395 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 390235000396 dimer interface [polypeptide binding]; other site 390235000397 conserved gate region; other site 390235000398 putative PBP binding loops; other site 390235000399 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 390235000400 ABC-ATPase subunit interface; other site 390235000401 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 390235000402 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 390235000403 Walker A/P-loop; other site 390235000404 ATP binding site [chemical binding]; other site 390235000405 Q-loop/lid; other site 390235000406 ABC transporter signature motif; other site 390235000407 Walker B; other site 390235000408 D-loop; other site 390235000409 H-loop/switch region; other site 390235000410 transcriptional regulator PhoU; Provisional; Region: PRK11115 390235000411 PhoU domain; Region: PhoU; pfam01895 390235000412 PhoU domain; Region: PhoU; pfam01895 390235000413 Response regulator receiver domain; Region: Response_reg; pfam00072 390235000414 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 390235000415 active site 390235000416 phosphorylation site [posttranslational modification] 390235000417 intermolecular recognition site; other site 390235000418 dimerization interface [polypeptide binding]; other site 390235000419 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 390235000420 Peptidase family M23; Region: Peptidase_M23; pfam01551 390235000421 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 390235000422 Domain of unknown function DUF21; Region: DUF21; pfam01595 390235000423 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 390235000424 Transporter associated domain; Region: CorC_HlyC; smart01091 390235000425 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 390235000426 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 390235000427 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 390235000428 putative active site [active] 390235000429 heme pocket [chemical binding]; other site 390235000430 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 390235000431 dimer interface [polypeptide binding]; other site 390235000432 phosphorylation site [posttranslational modification] 390235000433 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 390235000434 ATP binding site [chemical binding]; other site 390235000435 Mg2+ binding site [ion binding]; other site 390235000436 G-X-G motif; other site 390235000437 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 390235000438 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 390235000439 active site 390235000440 phosphorylation site [posttranslational modification] 390235000441 intermolecular recognition site; other site 390235000442 dimerization interface [polypeptide binding]; other site 390235000443 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 390235000444 DNA binding site [nucleotide binding] 390235000445 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 390235000446 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 390235000447 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 390235000448 UbiA prenyltransferase family; Region: UbiA; pfam01040 390235000449 Chorismate lyase; Region: Chor_lyase; cl01230 390235000450 Rubredoxin [Energy production and conversion]; Region: COG1773 390235000451 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 390235000452 iron binding site [ion binding]; other site 390235000453 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 390235000454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235000455 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 390235000456 IHF dimer interface [polypeptide binding]; other site 390235000457 IHF - DNA interface [nucleotide binding]; other site 390235000458 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 390235000459 putative deacylase active site [active] 390235000460 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 390235000461 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 390235000462 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 390235000463 generic binding surface II; other site 390235000464 ssDNA binding site; other site 390235000465 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 390235000466 ATP binding site [chemical binding]; other site 390235000467 putative Mg++ binding site [ion binding]; other site 390235000468 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 390235000469 nucleotide binding region [chemical binding]; other site 390235000470 ATP-binding site [chemical binding]; other site 390235000471 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 390235000472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000473 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 390235000474 dimerization interface [polypeptide binding]; other site 390235000475 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 390235000476 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 390235000477 biopolymer transport protein ExbD; Provisional; Region: PRK11267 390235000478 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 390235000479 tonB-system energizer ExbB; Region: exbB; TIGR02797 390235000480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235000481 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 390235000482 putative NAD(P) binding site [chemical binding]; other site 390235000483 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 390235000484 homotrimer interaction site [polypeptide binding]; other site 390235000485 putative active site [active] 390235000486 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 390235000487 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 390235000488 Zn2+ binding site [ion binding]; other site 390235000489 Mg2+ binding site [ion binding]; other site 390235000490 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 390235000491 synthetase active site [active] 390235000492 NTP binding site [chemical binding]; other site 390235000493 metal binding site [ion binding]; metal-binding site 390235000494 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 390235000495 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 390235000496 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 390235000497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235000498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000499 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 390235000500 dimerization interface [polypeptide binding]; other site 390235000501 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235000502 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235000503 Peptidase C26; Region: Peptidase_C26; pfam07722 390235000504 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 390235000505 catalytic triad [active] 390235000506 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 390235000507 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 390235000508 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 390235000509 catalytic site [active] 390235000510 G-X2-G-X-G-K; other site 390235000511 hypothetical protein; Provisional; Region: PRK11820 390235000512 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 390235000513 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 390235000514 ribonuclease PH; Reviewed; Region: rph; PRK00173 390235000515 Ribonuclease PH; Region: RNase_PH_bact; cd11362 390235000516 hexamer interface [polypeptide binding]; other site 390235000517 active site 390235000518 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 390235000519 putative active site [active] 390235000520 putative catalytic site [active] 390235000521 putative DNA binding site [nucleotide binding]; other site 390235000522 putative phosphate binding site [ion binding]; other site 390235000523 metal binding site A [ion binding]; metal-binding site 390235000524 putative AP binding site [nucleotide binding]; other site 390235000525 putative metal binding site B [ion binding]; other site 390235000526 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235000527 active site 390235000528 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 390235000529 feedback inhibition sensing region; other site 390235000530 homohexameric interface [polypeptide binding]; other site 390235000531 nucleotide binding site [chemical binding]; other site 390235000532 N-acetyl-L-glutamate binding site [chemical binding]; other site 390235000533 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 390235000534 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 390235000535 active site 390235000536 substrate binding site [chemical binding]; other site 390235000537 metal binding site [ion binding]; metal-binding site 390235000538 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 390235000539 trimer interface [polypeptide binding]; other site 390235000540 active site 390235000541 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 390235000542 Flavoprotein; Region: Flavoprotein; pfam02441 390235000543 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 390235000544 hypothetical protein; Reviewed; Region: PRK00024 390235000545 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 390235000546 MPN+ (JAMM) motif; other site 390235000547 Zinc-binding site [ion binding]; other site 390235000548 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 390235000549 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 390235000550 peptide binding site [polypeptide binding]; other site 390235000551 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 390235000552 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 390235000553 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 390235000554 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 390235000555 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 390235000556 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 390235000557 NAD(P) binding site [chemical binding]; other site 390235000558 catalytic residues [active] 390235000559 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235000560 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 390235000561 putative substrate translocation pore; other site 390235000562 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 390235000563 PLD-like domain; Region: PLDc_2; pfam13091 390235000564 putative active site [active] 390235000565 catalytic site [active] 390235000566 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 390235000567 PLD-like domain; Region: PLDc_2; pfam13091 390235000568 putative active site [active] 390235000569 catalytic site [active] 390235000570 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 390235000571 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235000572 DNA-binding site [nucleotide binding]; DNA binding site 390235000573 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 390235000574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235000575 homodimer interface [polypeptide binding]; other site 390235000576 catalytic residue [active] 390235000577 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 390235000578 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235000579 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235000580 Flagellin N-methylase; Region: FliB; pfam03692 390235000581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235000582 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 390235000583 putative DNA binding site [nucleotide binding]; other site 390235000584 putative Zn2+ binding site [ion binding]; other site 390235000585 AsnC family; Region: AsnC_trans_reg; pfam01037 390235000586 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 390235000587 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 390235000588 hydroxyglutarate oxidase; Provisional; Region: PRK11728 390235000589 alanine racemase; Reviewed; Region: dadX; PRK03646 390235000590 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 390235000591 active site 390235000592 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235000593 substrate binding site [chemical binding]; other site 390235000594 catalytic residues [active] 390235000595 dimer interface [polypeptide binding]; other site 390235000596 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 390235000597 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 390235000598 non-specific DNA binding site [nucleotide binding]; other site 390235000599 salt bridge; other site 390235000600 sequence-specific DNA binding site [nucleotide binding]; other site 390235000601 Cupin domain; Region: Cupin_2; pfam07883 390235000602 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 390235000603 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 390235000604 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 390235000605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235000606 active site 390235000607 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 390235000608 Part of AAA domain; Region: AAA_19; pfam13245 390235000609 Family description; Region: UvrD_C_2; pfam13538 390235000610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235000611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235000612 metal binding site [ion binding]; metal-binding site 390235000613 active site 390235000614 I-site; other site 390235000615 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 390235000616 multidrug efflux protein NorA; Provisional; Region: PRK00187 390235000617 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 390235000618 cation binding site [ion binding]; other site 390235000619 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235000620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000621 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 390235000622 dimerization interface [polypeptide binding]; other site 390235000623 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 390235000624 dimerization interface [polypeptide binding]; other site 390235000625 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235000626 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235000627 dimer interface [polypeptide binding]; other site 390235000628 putative CheW interface [polypeptide binding]; other site 390235000629 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 390235000630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 390235000631 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235000632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000633 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 390235000634 dimerization interface [polypeptide binding]; other site 390235000635 substrate binding pocket [chemical binding]; other site 390235000636 aldehyde dehydrogenase family 7 member; Region: PLN02315 390235000637 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 390235000638 tetrameric interface [polypeptide binding]; other site 390235000639 NAD binding site [chemical binding]; other site 390235000640 catalytic residues [active] 390235000641 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235000642 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235000643 PAAR motif; Region: PAAR_motif; pfam05488 390235000644 Isochorismatase family; Region: Isochorismatase; pfam00857 390235000645 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 390235000646 catalytic triad [active] 390235000647 dimer interface [polypeptide binding]; other site 390235000648 conserved cis-peptide bond; other site 390235000649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 390235000650 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235000651 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235000652 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235000653 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 390235000654 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 390235000655 active site 390235000656 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235000657 outer membrane porin, OprD family; Region: OprD; pfam03573 390235000658 LysR family transcriptional regulator; Provisional; Region: PRK14997 390235000659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235000660 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 390235000661 putative effector binding pocket; other site 390235000662 putative dimerization interface [polypeptide binding]; other site 390235000663 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 390235000664 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 390235000665 TrkA-N domain; Region: TrkA_N; pfam02254 390235000666 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235000667 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 390235000668 conserved cys residue [active] 390235000669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235000670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235000671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235000672 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235000673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235000674 Isochorismatase family; Region: Isochorismatase; pfam00857 390235000675 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 390235000676 catalytic triad [active] 390235000677 dimer interface [polypeptide binding]; other site 390235000678 conserved cis-peptide bond; other site 390235000679 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 390235000680 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 390235000681 substrate binding site [chemical binding]; other site 390235000682 activation loop (A-loop); other site 390235000683 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 390235000684 AAA ATPase domain; Region: AAA_16; pfam13191 390235000685 Predicted ATPase [General function prediction only]; Region: COG3899 390235000686 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235000687 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 390235000688 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235000689 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 390235000690 dimer interface [polypeptide binding]; other site 390235000691 phosphorylation site [posttranslational modification] 390235000692 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 390235000693 ATP binding site [chemical binding]; other site 390235000694 Mg2+ binding site [ion binding]; other site 390235000695 G-X-G motif; other site 390235000696 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235000697 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 390235000698 DNA binding site [nucleotide binding] 390235000699 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 390235000700 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 390235000701 active site 390235000702 phosphorylation site [posttranslational modification] 390235000703 intermolecular recognition site; other site 390235000704 dimerization interface [polypeptide binding]; other site 390235000705 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 390235000706 DNA binding residues [nucleotide binding] 390235000707 dimerization interface [polypeptide binding]; other site 390235000708 Response regulator receiver domain; Region: Response_reg; pfam00072 390235000709 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 390235000710 active site 390235000711 phosphorylation site [posttranslational modification] 390235000712 intermolecular recognition site; other site 390235000713 dimerization interface [polypeptide binding]; other site 390235000714 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 390235000715 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 390235000716 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235000717 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 390235000718 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 390235000719 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 390235000720 Walker A motif; other site 390235000721 ATP binding site [chemical binding]; other site 390235000722 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 390235000723 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 390235000724 Membrane fusogenic activity; Region: BMFP; pfam04380 390235000725 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 390235000726 Nitrogen regulatory protein P-II; Region: P-II; smart00938 390235000727 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 390235000728 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 390235000729 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 390235000730 motif II; other site 390235000731 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 390235000732 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 390235000733 active site 390235000734 DNA binding site [nucleotide binding] 390235000735 Int/Topo IB signature motif; other site 390235000736 Protein of unknown function, DUF484; Region: DUF484; cl17449 390235000737 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 390235000738 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 390235000739 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 390235000740 diaminopimelate decarboxylase; Region: lysA; TIGR01048 390235000741 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 390235000742 active site 390235000743 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235000744 substrate binding site [chemical binding]; other site 390235000745 catalytic residues [active] 390235000746 dimer interface [polypeptide binding]; other site 390235000747 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 390235000748 putative iron binding site [ion binding]; other site 390235000749 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 390235000750 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 390235000751 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 390235000752 adenylate cyclase; Provisional; Region: cyaA; PRK09450 390235000753 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 390235000754 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 390235000755 TIGR02647 family protein; Region: DNA 390235000756 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235000757 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 390235000758 C-terminal domain interface [polypeptide binding]; other site 390235000759 GSH binding site (G-site) [chemical binding]; other site 390235000760 dimer interface [polypeptide binding]; other site 390235000761 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 390235000762 N-terminal domain interface [polypeptide binding]; other site 390235000763 argininosuccinate lyase; Provisional; Region: PRK00855 390235000764 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 390235000765 active sites [active] 390235000766 tetramer interface [polypeptide binding]; other site 390235000767 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 390235000768 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 390235000769 active site 390235000770 phosphorylation site [posttranslational modification] 390235000771 intermolecular recognition site; other site 390235000772 dimerization interface [polypeptide binding]; other site 390235000773 LytTr DNA-binding domain; Region: LytTR; pfam04397 390235000774 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 390235000775 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 390235000776 domain interfaces; other site 390235000777 active site 390235000778 uroporphyrinogen-III synthase; Validated; Region: PRK05752 390235000779 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 390235000780 active site 390235000781 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 390235000782 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 390235000783 HemY protein N-terminus; Region: HemY_N; pfam07219 390235000784 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 390235000785 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 390235000786 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 390235000787 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 390235000788 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235000789 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 390235000790 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 390235000791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235000792 Walker A/P-loop; other site 390235000793 ATP binding site [chemical binding]; other site 390235000794 Q-loop/lid; other site 390235000795 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235000796 ABC transporter signature motif; other site 390235000797 Walker B; other site 390235000798 D-loop; other site 390235000799 ABC transporter; Region: ABC_tran_2; pfam12848 390235000800 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235000801 LysE type translocator; Region: LysE; cl00565 390235000802 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 390235000803 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 390235000804 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 390235000805 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 390235000806 dimer interface [polypeptide binding]; other site 390235000807 active site residues [active] 390235000808 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 390235000809 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 390235000810 putative deacylase active site [active] 390235000811 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 390235000812 FOG: CBS domain [General function prediction only]; Region: COG0517 390235000813 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 390235000814 hypothetical protein; Provisional; Region: PRK06156 390235000815 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 390235000816 active site 390235000817 metal binding site [ion binding]; metal-binding site 390235000818 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235000819 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 390235000820 putative DNA binding site [nucleotide binding]; other site 390235000821 putative Zn2+ binding site [ion binding]; other site 390235000822 AsnC family; Region: AsnC_trans_reg; pfam01037 390235000823 Uncharacterized conserved protein [Function unknown]; Region: COG3025 390235000824 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 390235000825 putative active site; other site 390235000826 putative metal binding residues [ion binding]; other site 390235000827 signature motif; other site 390235000828 putative triphosphate binding site [ion binding]; other site 390235000829 acetylornithine deacetylase; Provisional; Region: PRK05111 390235000830 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 390235000831 metal binding site [ion binding]; metal-binding site 390235000832 putative dimer interface [polypeptide binding]; other site 390235000833 N-acetylglutamate synthase; Validated; Region: PRK05279 390235000834 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 390235000835 putative feedback inhibition sensing region; other site 390235000836 putative nucleotide binding site [chemical binding]; other site 390235000837 putative substrate binding site [chemical binding]; other site 390235000838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235000839 Coenzyme A binding pocket [chemical binding]; other site 390235000840 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235000841 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235000842 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235000843 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235000844 putative aminotransferase; Validated; Region: PRK07480 390235000845 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 390235000846 inhibitor-cofactor binding pocket; inhibition site 390235000847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235000848 catalytic residue [active] 390235000849 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 390235000850 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235000851 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 390235000852 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235000853 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 390235000854 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235000855 Walker A/P-loop; other site 390235000856 ATP binding site [chemical binding]; other site 390235000857 Q-loop/lid; other site 390235000858 ABC transporter signature motif; other site 390235000859 Walker B; other site 390235000860 D-loop; other site 390235000861 H-loop/switch region; other site 390235000862 TOBE domain; Region: TOBE_2; pfam08402 390235000863 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235000864 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 390235000865 dimer interface [polypeptide binding]; other site 390235000866 conserved gate region; other site 390235000867 putative PBP binding loops; other site 390235000868 ABC-ATPase subunit interface; other site 390235000869 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235000870 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 390235000871 dimer interface [polypeptide binding]; other site 390235000872 conserved gate region; other site 390235000873 putative PBP binding loops; other site 390235000874 ABC-ATPase subunit interface; other site 390235000875 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235000876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235000877 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235000878 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235000879 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235000880 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235000881 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 390235000882 Uncharacterized small protein [Function unknown]; Region: COG5583 390235000883 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 390235000884 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 390235000885 substrate binding pocket [chemical binding]; other site 390235000886 membrane-bound complex binding site; other site 390235000887 hinge residues; other site 390235000888 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 390235000889 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 390235000890 dimer interface [polypeptide binding]; other site 390235000891 conserved gate region; other site 390235000892 putative PBP binding loops; other site 390235000893 ABC-ATPase subunit interface; other site 390235000894 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 390235000895 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 390235000896 dimer interface [polypeptide binding]; other site 390235000897 conserved gate region; other site 390235000898 putative PBP binding loops; other site 390235000899 ABC-ATPase subunit interface; other site 390235000900 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 390235000901 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 390235000902 Walker A/P-loop; other site 390235000903 ATP binding site [chemical binding]; other site 390235000904 Q-loop/lid; other site 390235000905 ABC transporter signature motif; other site 390235000906 Walker B; other site 390235000907 D-loop; other site 390235000908 H-loop/switch region; other site 390235000909 TOBE-like domain; Region: TOBE_3; pfam12857 390235000910 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 390235000911 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 390235000912 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 390235000913 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 390235000914 TolR protein; Region: tolR; TIGR02801 390235000915 Serine hydrolase; Region: Ser_hydrolase; pfam06821 390235000916 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235000917 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235000918 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 390235000919 Walker A motif; other site 390235000920 ATP binding site [chemical binding]; other site 390235000921 Walker B motif; other site 390235000922 arginine finger; other site 390235000923 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 390235000924 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 390235000925 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 390235000926 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 390235000927 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 390235000928 active site 390235000929 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 390235000930 active site 390235000931 substrate binding site [chemical binding]; other site 390235000932 trimer interface [polypeptide binding]; other site 390235000933 CoA binding site [chemical binding]; other site 390235000934 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235000935 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 390235000936 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 390235000937 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 390235000938 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 390235000939 Uncharacterized conserved protein [Function unknown]; Region: COG1683 390235000940 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 390235000941 substrate binding pocket [chemical binding]; other site 390235000942 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 390235000943 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 390235000944 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 390235000945 ligand binding site [chemical binding]; other site 390235000946 NAD binding site [chemical binding]; other site 390235000947 tetramer interface [polypeptide binding]; other site 390235000948 catalytic site [active] 390235000949 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 390235000950 L-serine binding site [chemical binding]; other site 390235000951 ACT domain interface; other site 390235000952 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 390235000953 FAD binding domain; Region: FAD_binding_4; pfam01565 390235000954 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 390235000955 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 390235000956 SdiA-regulated; Region: SdiA-regulated; pfam06977 390235000957 SdiA-regulated; Region: SdiA-regulated; cd09971 390235000958 putative active site [active] 390235000959 SdiA-regulated; Region: SdiA-regulated; pfam06977 390235000960 SdiA-regulated; Region: SdiA-regulated; cd09971 390235000961 putative active site [active] 390235000962 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 390235000963 tetramer (dimer of dimers) interface [polypeptide binding]; other site 390235000964 active site 390235000965 dimer interface [polypeptide binding]; other site 390235000966 threonine dehydratase; Reviewed; Region: PRK09224 390235000967 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 390235000968 tetramer interface [polypeptide binding]; other site 390235000969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235000970 catalytic residue [active] 390235000971 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 390235000972 putative Ile/Val binding site [chemical binding]; other site 390235000973 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 390235000974 putative Ile/Val binding site [chemical binding]; other site 390235000975 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 390235000976 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 390235000977 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 390235000978 motif II; other site 390235000979 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 390235000980 putative active site [active] 390235000981 Ap4A binding site [chemical binding]; other site 390235000982 nudix motif; other site 390235000983 putative metal binding site [ion binding]; other site 390235000984 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 390235000985 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 390235000986 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 390235000987 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 390235000988 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 390235000989 NRDE protein; Region: NRDE; cl01315 390235000990 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235000991 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 390235000992 thymidylate synthase; Provisional; Region: thyA; PRK13821 390235000993 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 390235000994 dimerization interface [polypeptide binding]; other site 390235000995 active site 390235000996 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 390235000997 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 390235000998 DNA binding residues [nucleotide binding] 390235000999 dimer interface [polypeptide binding]; other site 390235001000 putative metal binding site [ion binding]; other site 390235001001 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 390235001002 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; cl00207 390235001003 metal-binding site [ion binding] 390235001004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235001005 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 390235001006 motif II; other site 390235001007 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 390235001008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235001009 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 390235001010 dimerization interface [polypeptide binding]; other site 390235001011 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 390235001012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235001013 Walker A/P-loop; other site 390235001014 ATP binding site [chemical binding]; other site 390235001015 Q-loop/lid; other site 390235001016 ABC transporter signature motif; other site 390235001017 Walker B; other site 390235001018 D-loop; other site 390235001019 H-loop/switch region; other site 390235001020 TOBE domain; Region: TOBE_2; pfam08402 390235001021 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 390235001022 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 390235001023 dimer interface [polypeptide binding]; other site 390235001024 conserved gate region; other site 390235001025 putative PBP binding loops; other site 390235001026 ABC-ATPase subunit interface; other site 390235001027 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235001028 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 390235001029 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 390235001030 G1 box; other site 390235001031 GTP/Mg2+ binding site [chemical binding]; other site 390235001032 G2 box; other site 390235001033 Switch I region; other site 390235001034 G3 box; other site 390235001035 Switch II region; other site 390235001036 G4 box; other site 390235001037 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 390235001038 G5 box; other site 390235001039 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 390235001040 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 390235001041 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 390235001042 folate binding site [chemical binding]; other site 390235001043 NADP+ binding site [chemical binding]; other site 390235001044 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 390235001045 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235001046 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 390235001047 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 390235001048 FOG: CBS domain [General function prediction only]; Region: COG0517 390235001049 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 390235001050 Divalent cation transporter; Region: MgtE; pfam01769 390235001051 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 390235001052 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 390235001053 putative RNA binding site [nucleotide binding]; other site 390235001054 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 390235001055 S-adenosylmethionine binding site [chemical binding]; other site 390235001056 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 390235001057 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 390235001058 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 390235001059 DNA binding site [nucleotide binding] 390235001060 catalytic residue [active] 390235001061 H2TH interface [polypeptide binding]; other site 390235001062 putative catalytic residues [active] 390235001063 turnover-facilitating residue; other site 390235001064 intercalation triad [nucleotide binding]; other site 390235001065 8OG recognition residue [nucleotide binding]; other site 390235001066 putative reading head residues; other site 390235001067 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 390235001068 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 390235001069 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 390235001070 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 390235001071 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 390235001072 active site 390235001073 (T/H)XGH motif; other site 390235001074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235001075 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 390235001076 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 390235001077 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235001078 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 390235001079 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 390235001080 NAD(P) binding site [chemical binding]; other site 390235001081 catalytic residues [active] 390235001082 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235001083 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235001084 Bacterial transcriptional repressor; Region: TetR; pfam13972 390235001085 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 390235001086 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 390235001087 active site residue [active] 390235001088 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 390235001089 active site residue [active] 390235001090 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 390235001091 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 390235001092 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235001093 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 390235001094 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 390235001095 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235001096 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 390235001097 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 390235001098 S-adenosylmethionine binding site [chemical binding]; other site 390235001099 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 390235001100 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 390235001101 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235001102 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 390235001103 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 390235001104 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235001105 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 390235001106 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 390235001107 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 390235001108 P loop; other site 390235001109 GTP binding site [chemical binding]; other site 390235001110 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 390235001111 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235001112 Walker A/P-loop; other site 390235001113 ATP binding site [chemical binding]; other site 390235001114 Q-loop/lid; other site 390235001115 ABC transporter signature motif; other site 390235001116 Walker B; other site 390235001117 D-loop; other site 390235001118 H-loop/switch region; other site 390235001119 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 390235001120 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 390235001121 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 390235001122 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 390235001123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235001124 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 390235001125 DNA binding residues [nucleotide binding] 390235001126 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 390235001127 Transglycosylase; Region: Transgly; cl17702 390235001128 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 390235001129 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 390235001130 thiS-thiF/thiG interaction site; other site 390235001131 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 390235001132 ThiS interaction site; other site 390235001133 putative active site [active] 390235001134 tetramer interface [polypeptide binding]; other site 390235001135 Methyltransferase domain; Region: Methyltransf_31; pfam13847 390235001136 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 390235001137 S-adenosylmethionine binding site [chemical binding]; other site 390235001138 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 390235001139 HemN family oxidoreductase; Provisional; Region: PRK05660 390235001140 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 390235001141 FeS/SAM binding site; other site 390235001142 HemN C-terminal domain; Region: HemN_C; pfam06969 390235001143 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 390235001144 active site 390235001145 dimerization interface [polypeptide binding]; other site 390235001146 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 390235001147 hypothetical protein; Provisional; Region: PRK08317 390235001148 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 390235001149 S-adenosylmethionine binding site [chemical binding]; other site 390235001150 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 390235001151 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 390235001152 YGGT family; Region: YGGT; pfam02325 390235001153 YGGT family; Region: YGGT; pfam02325 390235001154 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 390235001155 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 390235001156 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 390235001157 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235001158 catalytic residue [active] 390235001159 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 390235001160 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 390235001161 Walker A motif; other site 390235001162 ATP binding site [chemical binding]; other site 390235001163 Walker B motif; other site 390235001164 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 390235001165 NlpC/P60 family; Region: NLPC_P60; pfam00877 390235001166 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 390235001167 TM2 domain; Region: TM2; cl00984 390235001168 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 390235001169 Sporulation related domain; Region: SPOR; pfam05036 390235001170 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 390235001171 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 390235001172 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 390235001173 active site 390235001174 HIGH motif; other site 390235001175 KMSK motif region; other site 390235001176 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 390235001177 tRNA binding surface [nucleotide binding]; other site 390235001178 anticodon binding site; other site 390235001179 primosome assembly protein PriA; Validated; Region: PRK05580 390235001180 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 390235001181 ATP binding site [chemical binding]; other site 390235001182 putative Mg++ binding site [ion binding]; other site 390235001183 helicase superfamily c-terminal domain; Region: HELICc; smart00490 390235001184 ATP-binding site [chemical binding]; other site 390235001185 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 390235001186 Staphylococcal nuclease homologues; Region: SNc; smart00318 390235001187 Catalytic site; other site 390235001188 Staphylococcal nuclease homologue; Region: SNase; pfam00565 390235001189 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 390235001190 Malic enzyme, N-terminal domain; Region: malic; pfam00390 390235001191 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 390235001192 putative NAD(P) binding site [chemical binding]; other site 390235001193 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 390235001194 Transglycosylase; Region: Transgly; pfam00912 390235001195 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 390235001196 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 390235001197 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 390235001198 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 390235001199 putative active site [active] 390235001200 putative NTP binding site [chemical binding]; other site 390235001201 putative nucleic acid binding site [nucleotide binding]; other site 390235001202 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 390235001203 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 390235001204 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 390235001205 active site 390235001206 Cell division protein FtsA; Region: FtsA; cl17206 390235001207 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 390235001208 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 390235001209 Pilus assembly protein, PilO; Region: PilO; cl01234 390235001210 Pilus assembly protein, PilP; Region: PilP; pfam04351 390235001211 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 390235001212 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235001213 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235001214 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235001215 shikimate kinase; Reviewed; Region: aroK; PRK00131 390235001216 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 390235001217 ADP binding site [chemical binding]; other site 390235001218 magnesium binding site [ion binding]; other site 390235001219 putative shikimate binding site; other site 390235001220 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 390235001221 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 390235001222 active site 390235001223 dimer interface [polypeptide binding]; other site 390235001224 metal binding site [ion binding]; metal-binding site 390235001225 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 390235001226 Part of AAA domain; Region: AAA_19; pfam13245 390235001227 Sporulation related domain; Region: SPOR; pfam05036 390235001228 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 390235001229 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 390235001230 active site 390235001231 dimer interface [polypeptide binding]; other site 390235001232 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 390235001233 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 390235001234 active site 390235001235 FMN binding site [chemical binding]; other site 390235001236 substrate binding site [chemical binding]; other site 390235001237 3Fe-4S cluster binding site [ion binding]; other site 390235001238 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 390235001239 domain interface; other site 390235001240 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 390235001241 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235001242 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 390235001243 substrate binding site [chemical binding]; other site 390235001244 active site 390235001245 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 390235001246 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235001247 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 390235001248 putative substrate translocation pore; other site 390235001249 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 390235001250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235001251 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 390235001252 dimerization interface [polypeptide binding]; other site 390235001253 substrate binding pocket [chemical binding]; other site 390235001254 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 390235001255 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 390235001256 P-loop; other site 390235001257 Magnesium ion binding site [ion binding]; other site 390235001258 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 390235001259 thioredoxin 2; Provisional; Region: PRK10996 390235001260 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 390235001261 catalytic residues [active] 390235001262 Uncharacterized conserved protein [Function unknown]; Region: COG0397 390235001263 hypothetical protein; Validated; Region: PRK00029 390235001264 hypothetical protein; Provisional; Region: PRK11281 390235001265 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 390235001266 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235001267 potassium/proton antiporter; Reviewed; Region: PRK05326 390235001268 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 390235001269 TrkA-C domain; Region: TrkA_C; pfam02080 390235001270 Transporter associated domain; Region: CorC_HlyC; smart01091 390235001271 choline dehydrogenase; Validated; Region: PRK02106 390235001272 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235001273 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 390235001274 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 390235001275 tetrameric interface [polypeptide binding]; other site 390235001276 NAD binding site [chemical binding]; other site 390235001277 catalytic residues [active] 390235001278 transcriptional regulator BetI; Validated; Region: PRK00767 390235001279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235001280 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 390235001281 BCCT family transporter; Region: BCCT; cl00569 390235001282 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 390235001283 NodB motif; other site 390235001284 putative active site [active] 390235001285 putative catalytic site [active] 390235001286 Zn binding site [ion binding]; other site 390235001287 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 390235001288 C-terminal peptidase (prc); Region: prc; TIGR00225 390235001289 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 390235001290 protein binding site [polypeptide binding]; other site 390235001291 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 390235001292 Catalytic dyad [active] 390235001293 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 390235001294 Peptidase family M23; Region: Peptidase_M23; pfam01551 390235001295 phosphoglyceromutase; Provisional; Region: PRK05434 390235001296 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 390235001297 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 390235001298 active site residue [active] 390235001299 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 390235001300 GSH binding site [chemical binding]; other site 390235001301 catalytic residues [active] 390235001302 preprotein translocase subunit SecB; Validated; Region: PRK05751 390235001303 SecA binding site; other site 390235001304 Preprotein binding site; other site 390235001305 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 390235001306 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 390235001307 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 390235001308 active site 390235001309 phosphorylation site [posttranslational modification] 390235001310 intermolecular recognition site; other site 390235001311 dimerization interface [polypeptide binding]; other site 390235001312 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 390235001313 Walker A motif; other site 390235001314 ATP binding site [chemical binding]; other site 390235001315 Walker B motif; other site 390235001316 arginine finger; other site 390235001317 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235001318 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 390235001319 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 390235001320 dimer interface [polypeptide binding]; other site 390235001321 phosphorylation site [posttranslational modification] 390235001322 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 390235001323 ATP binding site [chemical binding]; other site 390235001324 Mg2+ binding site [ion binding]; other site 390235001325 G-X-G motif; other site 390235001326 glutamine synthetase; Provisional; Region: glnA; PRK09469 390235001327 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 390235001328 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235001329 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 390235001330 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 390235001331 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 390235001332 Ligand Binding Site [chemical binding]; other site 390235001333 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 390235001334 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 390235001335 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 390235001336 G1 box; other site 390235001337 putative GEF interaction site [polypeptide binding]; other site 390235001338 GTP/Mg2+ binding site [chemical binding]; other site 390235001339 Switch I region; other site 390235001340 G2 box; other site 390235001341 G3 box; other site 390235001342 Switch II region; other site 390235001343 G4 box; other site 390235001344 G5 box; other site 390235001345 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 390235001346 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 390235001347 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 390235001348 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 390235001349 homodimer interface [polypeptide binding]; other site 390235001350 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 390235001351 active site pocket [active] 390235001352 fructose-1,6-bisphosphatase family protein; Region: PLN02628 390235001353 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 390235001354 AMP binding site [chemical binding]; other site 390235001355 metal binding site [ion binding]; metal-binding site 390235001356 active site 390235001357 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 390235001358 Cache domain; Region: Cache_1; pfam02743 390235001359 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 390235001360 dimerization interface [polypeptide binding]; other site 390235001361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235001362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235001363 dimer interface [polypeptide binding]; other site 390235001364 putative CheW interface [polypeptide binding]; other site 390235001365 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 390235001366 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 390235001367 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 390235001368 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 390235001369 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 390235001370 active site 390235001371 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 390235001372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235001373 DNA-binding site [nucleotide binding]; DNA binding site 390235001374 UTRA domain; Region: UTRA; pfam07702 390235001375 HutD; Region: HutD; pfam05962 390235001376 urocanate hydratase; Provisional; Region: PRK05414 390235001377 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 390235001378 active sites [active] 390235001379 tetramer interface [polypeptide binding]; other site 390235001380 putative proline-specific permease; Provisional; Region: proY; PRK10580 390235001381 Spore germination protein; Region: Spore_permease; cl17796 390235001382 imidazolonepropionase; Validated; Region: PRK09356 390235001383 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 390235001384 active site 390235001385 N-formylglutamate amidohydrolase; Region: FGase; cl01522 390235001386 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 390235001387 TAP-like protein; Region: Abhydrolase_4; pfam08386 390235001388 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 390235001389 putative active site [active] 390235001390 dimerization interface [polypeptide binding]; other site 390235001391 putative tRNAtyr binding site [nucleotide binding]; other site 390235001392 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 390235001393 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 390235001394 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235001395 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 390235001396 Ligand binding site; other site 390235001397 DXD motif; other site 390235001398 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235001399 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 390235001400 substrate binding pocket [chemical binding]; other site 390235001401 membrane-bound complex binding site; other site 390235001402 hinge residues; other site 390235001403 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235001404 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 390235001405 dimer interface [polypeptide binding]; other site 390235001406 conserved gate region; other site 390235001407 putative PBP binding loops; other site 390235001408 ABC-ATPase subunit interface; other site 390235001409 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 390235001410 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235001411 Walker A/P-loop; other site 390235001412 ATP binding site [chemical binding]; other site 390235001413 Q-loop/lid; other site 390235001414 ABC transporter signature motif; other site 390235001415 Walker B; other site 390235001416 D-loop; other site 390235001417 H-loop/switch region; other site 390235001418 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 390235001419 dimerization interface [polypeptide binding]; other site 390235001420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235001421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235001422 dimer interface [polypeptide binding]; other site 390235001423 putative CheW interface [polypeptide binding]; other site 390235001424 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 390235001425 dimerization interface [polypeptide binding]; other site 390235001426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235001427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235001428 dimer interface [polypeptide binding]; other site 390235001429 putative CheW interface [polypeptide binding]; other site 390235001430 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 390235001431 RNA methyltransferase, RsmE family; Region: TIGR00046 390235001432 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 390235001433 sec-independent translocase; Provisional; Region: tatB; PRK00404 390235001434 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 390235001435 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 390235001436 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 390235001437 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 390235001438 metal binding site [ion binding]; metal-binding site 390235001439 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 390235001440 ABC1 family; Region: ABC1; cl17513 390235001441 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 390235001442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 390235001443 SCP-2 sterol transfer family; Region: SCP2; pfam02036 390235001444 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 390235001445 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 390235001446 S-adenosylmethionine binding site [chemical binding]; other site 390235001447 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 390235001448 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 390235001449 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 390235001450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235001451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235001452 Bacterial transcriptional repressor; Region: TetR; pfam13972 390235001453 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 390235001454 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 390235001455 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 390235001456 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235001457 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 390235001458 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 390235001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 390235001460 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 390235001461 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 390235001462 Walker A motif; other site 390235001463 ATP binding site [chemical binding]; other site 390235001464 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 390235001465 Walker B motif; other site 390235001466 arginine finger; other site 390235001467 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 390235001468 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 390235001469 active site 390235001470 HslU subunit interaction site [polypeptide binding]; other site 390235001471 dihydroorotase; Validated; Region: pyrC; PRK09357 390235001472 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 390235001473 active site 390235001474 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 390235001475 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 390235001476 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 390235001477 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 390235001478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235001479 active site 390235001480 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 390235001481 hypothetical protein; Validated; Region: PRK00228 390235001482 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 390235001483 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 390235001484 glutathione synthetase; Provisional; Region: PRK05246 390235001485 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 390235001486 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 390235001487 Response regulator receiver domain; Region: Response_reg; pfam00072 390235001488 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 390235001489 active site 390235001490 phosphorylation site [posttranslational modification] 390235001491 intermolecular recognition site; other site 390235001492 dimerization interface [polypeptide binding]; other site 390235001493 Response regulator receiver domain; Region: Response_reg; pfam00072 390235001494 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 390235001495 active site 390235001496 phosphorylation site [posttranslational modification] 390235001497 intermolecular recognition site; other site 390235001498 dimerization interface [polypeptide binding]; other site 390235001499 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235001500 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 390235001501 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235001502 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235001503 dimer interface [polypeptide binding]; other site 390235001504 putative CheW interface [polypeptide binding]; other site 390235001505 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 390235001506 putative binding surface; other site 390235001507 active site 390235001508 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 390235001509 putative binding surface; other site 390235001510 active site 390235001511 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 390235001512 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 390235001513 putative binding surface; other site 390235001514 active site 390235001515 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 390235001516 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 390235001517 ATP binding site [chemical binding]; other site 390235001518 Mg2+ binding site [ion binding]; other site 390235001519 G-X-G motif; other site 390235001520 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 390235001521 Response regulator receiver domain; Region: Response_reg; pfam00072 390235001522 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 390235001523 active site 390235001524 phosphorylation site [posttranslational modification] 390235001525 intermolecular recognition site; other site 390235001526 dimerization interface [polypeptide binding]; other site 390235001527 CheW-like domain; Region: CheW; pfam01584 390235001528 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 390235001529 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 390235001530 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 390235001531 RNA methyltransferase, RsmE family; Region: TIGR00046 390235001532 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 390235001533 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 390235001534 inhibitor-cofactor binding pocket; inhibition site 390235001535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235001536 catalytic residue [active] 390235001537 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 390235001538 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 390235001539 hypothetical protein; Provisional; Region: PRK03757 390235001540 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 390235001541 DEAD-like helicases superfamily; Region: DEXDc; smart00487 390235001542 ATP binding site [chemical binding]; other site 390235001543 Mg++ binding site [ion binding]; other site 390235001544 motif III; other site 390235001545 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 390235001546 nucleotide binding region [chemical binding]; other site 390235001547 ATP-binding site [chemical binding]; other site 390235001548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235001549 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 390235001550 substrate binding pocket [chemical binding]; other site 390235001551 membrane-bound complex binding site; other site 390235001552 hinge residues; other site 390235001553 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 390235001554 FAD binding site [chemical binding]; other site 390235001555 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 390235001556 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 390235001557 homotetramer interface [polypeptide binding]; other site 390235001558 ligand binding site [chemical binding]; other site 390235001559 catalytic site [active] 390235001560 NAD binding site [chemical binding]; other site 390235001561 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 390235001562 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 390235001563 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 390235001564 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 390235001565 EamA-like transporter family; Region: EamA; pfam00892 390235001566 Predicted membrane protein [Function unknown]; Region: COG3686 390235001567 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 390235001568 MltA specific insert domain; Region: MltA; smart00925 390235001569 3D domain; Region: 3D; pfam06725 390235001570 Cytochrome C' Region: Cytochrom_C_2; pfam01322 390235001571 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 390235001572 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 390235001573 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 390235001574 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; cl03295 390235001575 nucleotide binding pocket [chemical binding]; other site 390235001576 K-X-D-G motif; other site 390235001577 catalytic site [active] 390235001578 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 390235001579 S-adenosylmethionine synthetase; Validated; Region: PRK05250 390235001580 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 390235001581 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 390235001582 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 390235001583 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 390235001584 dimerization interface [polypeptide binding]; other site 390235001585 putative DNA binding site [nucleotide binding]; other site 390235001586 putative Zn2+ binding site [ion binding]; other site 390235001587 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235001588 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 390235001589 S-adenosylmethionine binding site [chemical binding]; other site 390235001590 transketolase; Reviewed; Region: PRK12753 390235001591 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 390235001592 TPP-binding site [chemical binding]; other site 390235001593 dimer interface [polypeptide binding]; other site 390235001594 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 390235001595 PYR/PP interface [polypeptide binding]; other site 390235001596 dimer interface [polypeptide binding]; other site 390235001597 TPP binding site [chemical binding]; other site 390235001598 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 390235001599 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 390235001600 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 390235001601 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 390235001602 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 390235001603 Phosphoglycerate kinase; Region: PGK; pfam00162 390235001604 substrate binding site [chemical binding]; other site 390235001605 hinge regions; other site 390235001606 ADP binding site [chemical binding]; other site 390235001607 catalytic site [active] 390235001608 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 390235001609 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 390235001610 intersubunit interface [polypeptide binding]; other site 390235001611 active site 390235001612 zinc binding site [ion binding]; other site 390235001613 Na+ binding site [ion binding]; other site 390235001614 Response regulator receiver domain; Region: Response_reg; pfam00072 390235001615 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 390235001616 active site 390235001617 phosphorylation site [posttranslational modification] 390235001618 intermolecular recognition site; other site 390235001619 dimerization interface [polypeptide binding]; other site 390235001620 PAS domain S-box; Region: sensory_box; TIGR00229 390235001621 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 390235001622 putative active site [active] 390235001623 heme pocket [chemical binding]; other site 390235001624 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235001625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235001626 metal binding site [ion binding]; metal-binding site 390235001627 active site 390235001628 I-site; other site 390235001629 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 390235001630 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 390235001631 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 390235001632 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 390235001633 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235001634 substrate binding pocket [chemical binding]; other site 390235001635 membrane-bound complex binding site; other site 390235001636 hinge residues; other site 390235001637 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 390235001638 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 390235001639 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 390235001640 HI0933-like protein; Region: HI0933_like; pfam03486 390235001641 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235001642 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 390235001643 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 390235001644 ATP binding site [chemical binding]; other site 390235001645 Mg++ binding site [ion binding]; other site 390235001646 motif III; other site 390235001647 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 390235001648 nucleotide binding region [chemical binding]; other site 390235001649 ATP-binding site [chemical binding]; other site 390235001650 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 390235001651 putative RNA binding site [nucleotide binding]; other site 390235001652 putative transporter; Provisional; Region: PRK10504 390235001653 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 390235001654 putative substrate translocation pore; other site 390235001655 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 390235001656 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 390235001657 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 390235001658 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 390235001659 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235001660 active site 390235001661 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235001662 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235001663 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 390235001664 Predicted transcriptional regulator [Transcription]; Region: COG3905 390235001665 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 390235001666 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 390235001667 Glutamate binding site [chemical binding]; other site 390235001668 NAD binding site [chemical binding]; other site 390235001669 catalytic residues [active] 390235001670 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 390235001671 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 390235001672 Na binding site [ion binding]; other site 390235001673 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 390235001674 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 390235001675 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 390235001676 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 390235001677 putative ADP-binding pocket [chemical binding]; other site 390235001678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235001679 Mig-14; Region: Mig-14; pfam07395 390235001680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 390235001681 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 390235001682 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235001683 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 390235001684 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 390235001685 active site 390235001686 substrate binding site [chemical binding]; other site 390235001687 ATP binding site [chemical binding]; other site 390235001688 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 390235001689 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235001690 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 390235001691 Walker A/P-loop; other site 390235001692 ATP binding site [chemical binding]; other site 390235001693 Q-loop/lid; other site 390235001694 ABC transporter signature motif; other site 390235001695 Walker B; other site 390235001696 D-loop; other site 390235001697 H-loop/switch region; other site 390235001698 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 390235001699 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 390235001700 putative ribose interaction site [chemical binding]; other site 390235001701 putative ADP binding site [chemical binding]; other site 390235001702 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 390235001703 active site 390235001704 nucleotide binding site [chemical binding]; other site 390235001705 HIGH motif; other site 390235001706 KMSKS motif; other site 390235001707 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 390235001708 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235001709 active site 390235001710 catalytic tetrad [active] 390235001711 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 390235001712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235001713 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 390235001714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235001715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235001716 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 390235001717 dimerization interface [polypeptide binding]; other site 390235001718 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 390235001719 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 390235001720 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 390235001721 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 390235001722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235001723 DNA-binding site [nucleotide binding]; DNA binding site 390235001724 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 390235001725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235001726 homodimer interface [polypeptide binding]; other site 390235001727 catalytic residue [active] 390235001728 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 390235001729 substrate binding pocket [chemical binding]; other site 390235001730 active site 390235001731 iron coordination sites [ion binding]; other site 390235001732 hypothetical protein; Provisional; Region: PRK10621 390235001733 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235001734 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 390235001735 malonic semialdehyde reductase; Provisional; Region: PRK10538 390235001736 putative NAD(P) binding site [chemical binding]; other site 390235001737 homotetramer interface [polypeptide binding]; other site 390235001738 homodimer interface [polypeptide binding]; other site 390235001739 active site 390235001740 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 390235001741 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 390235001742 molybdopterin cofactor binding site; other site 390235001743 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 390235001744 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 390235001745 molybdopterin cofactor binding site; other site 390235001746 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 390235001747 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 390235001748 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 390235001749 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 390235001750 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 390235001751 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 390235001752 selenocysteine synthase; Provisional; Region: PRK04311 390235001753 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 390235001754 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 390235001755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235001756 catalytic residue [active] 390235001757 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 390235001758 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 390235001759 G1 box; other site 390235001760 putative GEF interaction site [polypeptide binding]; other site 390235001761 GTP/Mg2+ binding site [chemical binding]; other site 390235001762 Switch I region; other site 390235001763 G2 box; other site 390235001764 G3 box; other site 390235001765 Switch II region; other site 390235001766 G4 box; other site 390235001767 G5 box; other site 390235001768 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 390235001769 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 390235001770 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 390235001771 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 390235001772 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 390235001773 active site 390235001774 homodimer interface [polypeptide binding]; other site 390235001775 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 390235001776 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 390235001777 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 390235001778 sequence-specific DNA binding site [nucleotide binding]; other site 390235001779 salt bridge; other site 390235001780 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 390235001781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235001782 NAD(P) binding site [chemical binding]; other site 390235001783 active site 390235001784 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235001785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235001786 NAD(P) binding site [chemical binding]; other site 390235001787 active site 390235001788 Predicted transcriptional regulators [Transcription]; Region: COG1733 390235001789 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 390235001790 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235001791 OmpW family; Region: OmpW; cl17427 390235001792 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 390235001793 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235001794 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 390235001795 FtsX-like permease family; Region: FtsX; pfam02687 390235001796 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 390235001797 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235001798 Walker A/P-loop; other site 390235001799 ATP binding site [chemical binding]; other site 390235001800 Q-loop/lid; other site 390235001801 ABC transporter signature motif; other site 390235001802 Walker B; other site 390235001803 D-loop; other site 390235001804 H-loop/switch region; other site 390235001805 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 390235001806 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 390235001807 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 390235001808 Predicted methyltransferase [General function prediction only]; Region: COG3897 390235001809 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 390235001810 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 390235001811 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 390235001812 ATP cone domain; Region: ATP-cone; pfam03477 390235001813 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 390235001814 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 390235001815 catalytic motif [active] 390235001816 Zn binding site [ion binding]; other site 390235001817 RibD C-terminal domain; Region: RibD_C; cl17279 390235001818 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 390235001819 Lumazine binding domain; Region: Lum_binding; pfam00677 390235001820 Lumazine binding domain; Region: Lum_binding; pfam00677 390235001821 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 390235001822 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 390235001823 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 390235001824 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 390235001825 homopentamer interface [polypeptide binding]; other site 390235001826 active site 390235001827 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 390235001828 putative RNA binding site [nucleotide binding]; other site 390235001829 thiamine monophosphate kinase; Provisional; Region: PRK05731 390235001830 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 390235001831 ATP binding site [chemical binding]; other site 390235001832 dimerization interface [polypeptide binding]; other site 390235001833 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 390235001834 tetramer interfaces [polypeptide binding]; other site 390235001835 binuclear metal-binding site [ion binding]; other site 390235001836 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235001837 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 390235001838 dimerization interface [polypeptide binding]; other site 390235001839 active site 390235001840 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 390235001841 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 390235001842 cobalamin binding residues [chemical binding]; other site 390235001843 putative BtuC binding residues; other site 390235001844 dimer interface [polypeptide binding]; other site 390235001845 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 390235001846 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 390235001847 N-terminal plug; other site 390235001848 ligand-binding site [chemical binding]; other site 390235001849 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 390235001850 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 390235001851 TPP-binding site; other site 390235001852 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 390235001853 PYR/PP interface [polypeptide binding]; other site 390235001854 dimer interface [polypeptide binding]; other site 390235001855 TPP binding site [chemical binding]; other site 390235001856 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 390235001857 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 390235001858 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 390235001859 substrate binding pocket [chemical binding]; other site 390235001860 chain length determination region; other site 390235001861 substrate-Mg2+ binding site; other site 390235001862 catalytic residues [active] 390235001863 aspartate-rich region 1; other site 390235001864 active site lid residues [active] 390235001865 aspartate-rich region 2; other site 390235001866 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 390235001867 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 390235001868 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 390235001869 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 390235001870 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235001871 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 390235001872 phosphorylation site [posttranslational modification] 390235001873 dimer interface [polypeptide binding]; other site 390235001874 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 390235001875 ATP binding site [chemical binding]; other site 390235001876 Mg2+ binding site [ion binding]; other site 390235001877 G-X-G motif; other site 390235001878 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235001879 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 390235001880 active site 390235001881 phosphorylation site [posttranslational modification] 390235001882 intermolecular recognition site; other site 390235001883 dimerization interface [polypeptide binding]; other site 390235001884 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 390235001885 DNA binding site [nucleotide binding] 390235001886 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 390235001887 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 390235001888 N-terminal plug; other site 390235001889 ligand-binding site [chemical binding]; other site 390235001890 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235001891 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 390235001892 non-specific DNA binding site [nucleotide binding]; other site 390235001893 salt bridge; other site 390235001894 sequence-specific DNA binding site [nucleotide binding]; other site 390235001895 Predicted transcriptional regulator [Transcription]; Region: COG2932 390235001896 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 390235001897 Catalytic site [active] 390235001898 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 390235001899 dimer interface [polypeptide binding]; other site 390235001900 substrate binding site [chemical binding]; other site 390235001901 metal binding sites [ion binding]; metal-binding site 390235001902 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 390235001903 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 390235001904 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 390235001905 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 390235001906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235001907 Coenzyme A binding pocket [chemical binding]; other site 390235001908 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 390235001909 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 390235001910 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 390235001911 ethanolamine permease; Region: 2A0305; TIGR00908 390235001912 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 390235001913 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235001914 NAD(P) binding site [chemical binding]; other site 390235001915 catalytic residues [active] 390235001916 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 390235001917 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 390235001918 putative active site [active] 390235001919 heme pocket [chemical binding]; other site 390235001920 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 390235001921 Walker A motif; other site 390235001922 ATP binding site [chemical binding]; other site 390235001923 Walker B motif; other site 390235001924 arginine finger; other site 390235001925 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235001926 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 390235001927 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 390235001928 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235001929 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 390235001930 aromatic acid decarboxylase; Validated; Region: PRK05920 390235001931 Flavoprotein; Region: Flavoprotein; pfam02441 390235001932 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 390235001933 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 390235001934 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 390235001935 NAD binding site [chemical binding]; other site 390235001936 active site 390235001937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 390235001938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 390235001939 Peptidase C13 family; Region: Peptidase_C13; pfam01650 390235001940 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 390235001941 putative active site [active] 390235001942 putative catalytic site [active] 390235001943 LrgA family; Region: LrgA; cl00608 390235001944 LrgB-like family; Region: LrgB; pfam04172 390235001945 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 390235001946 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 390235001947 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 390235001948 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 390235001949 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 390235001950 active site 390235001951 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 390235001952 active site 390235001953 DNA binding site [nucleotide binding] 390235001954 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 390235001955 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 390235001956 putative catalytic cysteine [active] 390235001957 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 390235001958 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 390235001959 active site 390235001960 (T/H)XGH motif; other site 390235001961 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 390235001962 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 390235001963 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 390235001964 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 390235001965 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 390235001966 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 390235001967 Transglycosylase SLT domain; Region: SLT_2; pfam13406 390235001968 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 390235001969 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235001970 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 390235001971 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 390235001972 Sporulation related domain; Region: SPOR; pfam05036 390235001973 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 390235001974 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 390235001975 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 390235001976 hypothetical protein; Provisional; Region: PRK00341 390235001977 lipoate-protein ligase B; Provisional; Region: PRK14342 390235001978 lipoyl synthase; Provisional; Region: PRK05481 390235001979 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 390235001980 FeS/SAM binding site; other site 390235001981 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 390235001982 dimer interface [polypeptide binding]; other site 390235001983 catalytic triad [active] 390235001984 Transglycosylase SLT domain; Region: SLT_2; pfam13406 390235001985 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 390235001986 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235001987 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 390235001988 Domain of unknown function; Region: DUF331; cl01149 390235001989 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 390235001990 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 390235001991 Lipopolysaccharide-assembly; Region: LptE; cl01125 390235001992 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 390235001993 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 390235001994 HIGH motif; other site 390235001995 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 390235001996 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 390235001997 active site 390235001998 KMSKS motif; other site 390235001999 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 390235002000 tRNA binding surface [nucleotide binding]; other site 390235002001 Uncharacterized conserved protein [Function unknown]; Region: COG1434 390235002002 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 390235002003 putative active site [active] 390235002004 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 390235002005 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 390235002006 putative active site [active] 390235002007 catalytic triad [active] 390235002008 putative dimer interface [polypeptide binding]; other site 390235002009 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 390235002010 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 390235002011 Transporter associated domain; Region: CorC_HlyC; smart01091 390235002012 metal-binding heat shock protein; Provisional; Region: PRK00016 390235002013 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 390235002014 PhoH-like protein; Region: PhoH; pfam02562 390235002015 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 390235002016 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 390235002017 Sel1-like repeats; Region: SEL1; smart00671 390235002018 Sel1-like repeats; Region: SEL1; smart00671 390235002019 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 390235002020 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 390235002021 inhibitor-cofactor binding pocket; inhibition site 390235002022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235002023 catalytic residue [active] 390235002024 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 390235002025 thiamine phosphate binding site [chemical binding]; other site 390235002026 active site 390235002027 pyrophosphate binding site [ion binding]; other site 390235002028 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 390235002029 dimer interface [polypeptide binding]; other site 390235002030 substrate binding site [chemical binding]; other site 390235002031 ATP binding site [chemical binding]; other site 390235002032 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 390235002033 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 390235002034 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 390235002035 dimer interface [polypeptide binding]; other site 390235002036 phosphorylation site [posttranslational modification] 390235002037 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 390235002038 ATP binding site [chemical binding]; other site 390235002039 Mg2+ binding site [ion binding]; other site 390235002040 G-X-G motif; other site 390235002041 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235002042 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235002043 active site 390235002044 AMP nucleosidase; Provisional; Region: PRK08292 390235002045 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 390235002046 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 390235002047 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 390235002048 pseudouridine synthase; Region: TIGR00093 390235002049 active site 390235002050 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 390235002051 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235002052 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 390235002053 putative DNA binding site [nucleotide binding]; other site 390235002054 putative Zn2+ binding site [ion binding]; other site 390235002055 AsnC family; Region: AsnC_trans_reg; pfam01037 390235002056 Cation efflux family; Region: Cation_efflux; cl00316 390235002057 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 390235002058 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 390235002059 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 390235002060 ATP binding site [chemical binding]; other site 390235002061 putative Mg++ binding site [ion binding]; other site 390235002062 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 390235002063 nucleotide binding region [chemical binding]; other site 390235002064 ATP-binding site [chemical binding]; other site 390235002065 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 390235002066 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 390235002067 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 390235002068 Uncharacterized conserved protein [Function unknown]; Region: COG1432 390235002069 LabA_like proteins; Region: LabA; cd10911 390235002070 putative metal binding site [ion binding]; other site 390235002071 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 390235002072 EamA-like transporter family; Region: EamA; pfam00892 390235002073 EamA-like transporter family; Region: EamA; pfam00892 390235002074 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 390235002075 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 390235002076 ATP binding site [chemical binding]; other site 390235002077 Mg++ binding site [ion binding]; other site 390235002078 motif III; other site 390235002079 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 390235002080 nucleotide binding region [chemical binding]; other site 390235002081 ATP-binding site [chemical binding]; other site 390235002082 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 390235002083 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 390235002084 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 390235002085 putative active site [active] 390235002086 Zn binding site [ion binding]; other site 390235002087 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 390235002088 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 390235002089 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 390235002090 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 390235002091 active site 390235002092 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 390235002093 catalytic triad [active] 390235002094 dimer interface [polypeptide binding]; other site 390235002095 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 390235002096 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 390235002097 active site 390235002098 motif I; other site 390235002099 motif II; other site 390235002100 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 390235002101 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235002102 putative NAD(P) binding site [chemical binding]; other site 390235002103 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235002104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235002105 DNA-binding site [nucleotide binding]; DNA binding site 390235002106 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235002107 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 390235002108 D-galactonate transporter; Region: 2A0114; TIGR00893 390235002109 putative substrate translocation pore; other site 390235002110 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 390235002111 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 390235002112 active site 390235002113 tetramer interface [polypeptide binding]; other site 390235002114 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 390235002115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002116 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 390235002117 putative dimerization interface [polypeptide binding]; other site 390235002118 putative substrate binding pocket [chemical binding]; other site 390235002119 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 390235002120 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 390235002121 putative ligand binding site [chemical binding]; other site 390235002122 NAD binding site [chemical binding]; other site 390235002123 catalytic site [active] 390235002124 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 390235002125 D-galactonate transporter; Region: 2A0114; TIGR00893 390235002126 putative substrate translocation pore; other site 390235002127 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 390235002128 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235002129 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002130 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235002131 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002132 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 390235002133 active site 390235002134 putative substrate binding region [chemical binding]; other site 390235002135 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 390235002136 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235002137 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002138 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 390235002139 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 390235002140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235002141 Coenzyme A binding pocket [chemical binding]; other site 390235002142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 390235002143 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 390235002144 Phage Tail Collar Domain; Region: Collar; pfam07484 390235002145 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 390235002146 Right handed beta helix region; Region: Beta_helix; pfam13229 390235002147 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 390235002148 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 390235002149 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 390235002150 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 390235002151 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 390235002152 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 390235002153 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 390235002154 ligand-binding site [chemical binding]; other site 390235002155 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 390235002156 Part of AAA domain; Region: AAA_19; pfam13245 390235002157 Uncharacterized conserved protein [Function unknown]; Region: COG3410 390235002158 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 390235002159 homodimer interface [polypeptide binding]; other site 390235002160 chemical substrate binding site [chemical binding]; other site 390235002161 oligomer interface [polypeptide binding]; other site 390235002162 metal binding site [ion binding]; metal-binding site 390235002163 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 390235002164 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 390235002165 cofactor binding site; other site 390235002166 DNA binding site [nucleotide binding] 390235002167 substrate interaction site [chemical binding]; other site 390235002168 Uncharacterized conserved protein [Function unknown]; Region: COG1479 390235002169 Protein of unknown function DUF262; Region: DUF262; pfam03235 390235002170 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 390235002171 additional DNA contacts [nucleotide binding]; other site 390235002172 mismatch recognition site; other site 390235002173 active site 390235002174 zinc binding site [ion binding]; other site 390235002175 DNA intercalation site [nucleotide binding]; other site 390235002176 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 390235002177 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 390235002178 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 390235002179 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 390235002180 active site 390235002181 catalytic residues [active] 390235002182 Int/Topo IB signature motif; other site 390235002183 DNA binding site [nucleotide binding] 390235002184 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235002185 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235002186 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235002187 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 390235002188 FAD binding domain; Region: FAD_binding_4; pfam01565 390235002189 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 390235002190 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 390235002191 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 390235002192 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 390235002193 active site 390235002194 substrate binding site [chemical binding]; other site 390235002195 FMN binding site [chemical binding]; other site 390235002196 putative catalytic residues [active] 390235002197 glycolate transporter; Provisional; Region: PRK09695 390235002198 L-lactate permease; Region: Lactate_perm; cl00701 390235002199 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 390235002200 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235002201 DNA-binding site [nucleotide binding]; DNA binding site 390235002202 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235002203 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 390235002204 SmpB-tmRNA interface; other site 390235002205 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 390235002206 putative coenzyme Q binding site [chemical binding]; other site 390235002207 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 390235002208 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 390235002209 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 390235002210 metal binding site 2 [ion binding]; metal-binding site 390235002211 putative DNA binding helix; other site 390235002212 metal binding site 1 [ion binding]; metal-binding site 390235002213 dimer interface [polypeptide binding]; other site 390235002214 structural Zn2+ binding site [ion binding]; other site 390235002215 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 390235002216 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 390235002217 Walker A/P-loop; other site 390235002218 ATP binding site [chemical binding]; other site 390235002219 Q-loop/lid; other site 390235002220 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 390235002221 ABC transporter signature motif; other site 390235002222 Walker B; other site 390235002223 D-loop; other site 390235002224 H-loop/switch region; other site 390235002225 GrpE; Region: GrpE; pfam01025 390235002226 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 390235002227 dimer interface [polypeptide binding]; other site 390235002228 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 390235002229 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 390235002230 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 390235002231 nucleotide binding site [chemical binding]; other site 390235002232 NEF interaction site [polypeptide binding]; other site 390235002233 SBD interface [polypeptide binding]; other site 390235002234 chaperone protein DnaJ; Provisional; Region: PRK10767 390235002235 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 390235002236 HSP70 interaction site [polypeptide binding]; other site 390235002237 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 390235002238 substrate binding site [polypeptide binding]; other site 390235002239 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 390235002240 Zn binding sites [ion binding]; other site 390235002241 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 390235002242 dimer interface [polypeptide binding]; other site 390235002243 dihydrodipicolinate reductase; Provisional; Region: PRK00048 390235002244 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 390235002245 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 390235002246 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 390235002247 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 390235002248 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 390235002249 catalytic site [active] 390235002250 subunit interface [polypeptide binding]; other site 390235002251 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 390235002252 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 390235002253 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 390235002254 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 390235002255 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 390235002256 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235002257 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 390235002258 IMP binding site; other site 390235002259 dimer interface [polypeptide binding]; other site 390235002260 interdomain contacts; other site 390235002261 partial ornithine binding site; other site 390235002262 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 390235002263 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 390235002264 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 390235002265 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 390235002266 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 390235002267 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 390235002268 S-adenosylmethionine binding site [chemical binding]; other site 390235002269 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 390235002270 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 390235002271 Walker A motif; other site 390235002272 ATP binding site [chemical binding]; other site 390235002273 Walker B motif; other site 390235002274 arginine finger; other site 390235002275 Peptidase family M41; Region: Peptidase_M41; pfam01434 390235002276 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 390235002277 dihydropteroate synthase; Region: DHPS; TIGR01496 390235002278 substrate binding pocket [chemical binding]; other site 390235002279 dimer interface [polypeptide binding]; other site 390235002280 inhibitor binding site; inhibition site 390235002281 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 390235002282 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 390235002283 active site 390235002284 substrate binding site [chemical binding]; other site 390235002285 metal binding site [ion binding]; metal-binding site 390235002286 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 390235002287 triosephosphate isomerase; Provisional; Region: PRK14567 390235002288 substrate binding site [chemical binding]; other site 390235002289 dimer interface [polypeptide binding]; other site 390235002290 catalytic triad [active] 390235002291 Preprotein translocase SecG subunit; Region: SecG; cl09123 390235002292 ribosome maturation protein RimP; Reviewed; Region: PRK00092 390235002293 Sm and related proteins; Region: Sm_like; cl00259 390235002294 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 390235002295 putative oligomer interface [polypeptide binding]; other site 390235002296 putative RNA binding site [nucleotide binding]; other site 390235002297 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 390235002298 NusA N-terminal domain; Region: NusA_N; pfam08529 390235002299 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 390235002300 RNA binding site [nucleotide binding]; other site 390235002301 homodimer interface [polypeptide binding]; other site 390235002302 NusA-like KH domain; Region: KH_5; pfam13184 390235002303 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 390235002304 G-X-X-G motif; other site 390235002305 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 390235002306 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 390235002307 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 390235002308 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 390235002309 translation initiation factor IF-2; Region: IF-2; TIGR00487 390235002310 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 390235002311 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 390235002312 G1 box; other site 390235002313 putative GEF interaction site [polypeptide binding]; other site 390235002314 GTP/Mg2+ binding site [chemical binding]; other site 390235002315 Switch I region; other site 390235002316 G2 box; other site 390235002317 G3 box; other site 390235002318 Switch II region; other site 390235002319 G4 box; other site 390235002320 G5 box; other site 390235002321 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 390235002322 Translation-initiation factor 2; Region: IF-2; pfam11987 390235002323 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 390235002324 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 390235002325 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 390235002326 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 390235002327 RNA binding site [nucleotide binding]; other site 390235002328 active site 390235002329 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 390235002330 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 390235002331 16S/18S rRNA binding site [nucleotide binding]; other site 390235002332 S13e-L30e interaction site [polypeptide binding]; other site 390235002333 25S rRNA binding site [nucleotide binding]; other site 390235002334 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 390235002335 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 390235002336 RNase E interface [polypeptide binding]; other site 390235002337 trimer interface [polypeptide binding]; other site 390235002338 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 390235002339 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 390235002340 RNase E interface [polypeptide binding]; other site 390235002341 trimer interface [polypeptide binding]; other site 390235002342 active site 390235002343 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 390235002344 putative nucleic acid binding region [nucleotide binding]; other site 390235002345 G-X-X-G motif; other site 390235002346 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 390235002347 RNA binding site [nucleotide binding]; other site 390235002348 domain interface; other site 390235002349 BON domain; Region: BON; pfam04972 390235002350 Uncharacterized conserved protein [Function unknown]; Region: COG1359 390235002351 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 390235002352 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235002353 active site 390235002354 metal binding site [ion binding]; metal-binding site 390235002355 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 390235002356 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 390235002357 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 390235002358 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 390235002359 ligand binding site [chemical binding]; other site 390235002360 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 390235002361 acetyl-CoA synthetase; Provisional; Region: PRK00174 390235002362 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 390235002363 active site 390235002364 CoA binding site [chemical binding]; other site 390235002365 acyl-activating enzyme (AAE) consensus motif; other site 390235002366 AMP binding site [chemical binding]; other site 390235002367 acetate binding site [chemical binding]; other site 390235002368 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 390235002369 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 390235002370 active site 390235002371 dimer interface [polypeptide binding]; other site 390235002372 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 390235002373 dimer interface [polypeptide binding]; other site 390235002374 active site 390235002375 pantoate--beta-alanine ligase; Region: panC; TIGR00018 390235002376 Pantoate-beta-alanine ligase; Region: PanC; cd00560 390235002377 active site 390235002378 ATP-binding site [chemical binding]; other site 390235002379 pantoate-binding site; other site 390235002380 HXXH motif; other site 390235002381 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 390235002382 oligomerization interface [polypeptide binding]; other site 390235002383 active site 390235002384 metal binding site [ion binding]; metal-binding site 390235002385 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 390235002386 catalytic center binding site [active] 390235002387 ATP binding site [chemical binding]; other site 390235002388 poly(A) polymerase; Region: pcnB; TIGR01942 390235002389 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 390235002390 active site 390235002391 NTP binding site [chemical binding]; other site 390235002392 metal binding triad [ion binding]; metal-binding site 390235002393 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 390235002394 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 390235002395 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235002396 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 390235002397 active site 390235002398 phosphorylation site [posttranslational modification] 390235002399 intermolecular recognition site; other site 390235002400 dimerization interface [polypeptide binding]; other site 390235002401 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 390235002402 Walker A motif; other site 390235002403 ATP binding site [chemical binding]; other site 390235002404 Walker B motif; other site 390235002405 arginine finger; other site 390235002406 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 390235002407 Na binding site [ion binding]; other site 390235002408 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 390235002409 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 390235002410 putative active site [active] 390235002411 heme pocket [chemical binding]; other site 390235002412 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 390235002413 dimer interface [polypeptide binding]; other site 390235002414 phosphorylation site [posttranslational modification] 390235002415 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 390235002416 ATP binding site [chemical binding]; other site 390235002417 Mg2+ binding site [ion binding]; other site 390235002418 G-X-G motif; other site 390235002419 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 390235002420 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 390235002421 active site 390235002422 HIGH motif; other site 390235002423 nucleotide binding site [chemical binding]; other site 390235002424 KMSKS motif; other site 390235002425 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 390235002426 hypothetical protein; Provisional; Region: PRK08960 390235002427 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 390235002428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235002429 homodimer interface [polypeptide binding]; other site 390235002430 catalytic residue [active] 390235002431 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 390235002432 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 390235002433 iron-sulfur cluster [ion binding]; other site 390235002434 [2Fe-2S] cluster binding site [ion binding]; other site 390235002435 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 390235002436 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 390235002437 intersubunit interface [polypeptide binding]; other site 390235002438 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 390235002439 ABC-ATPase subunit interface; other site 390235002440 dimer interface [polypeptide binding]; other site 390235002441 putative PBP binding regions; other site 390235002442 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 390235002443 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 390235002444 Walker A/P-loop; other site 390235002445 ATP binding site [chemical binding]; other site 390235002446 Q-loop/lid; other site 390235002447 ABC transporter signature motif; other site 390235002448 Walker B; other site 390235002449 D-loop; other site 390235002450 H-loop/switch region; other site 390235002451 Protein of unknown function, DUF399; Region: DUF399; cl01139 390235002452 TfoX C-terminal domain; Region: TfoX_C; pfam04994 390235002453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 390235002454 AAA domain; Region: AAA_33; pfam13671 390235002455 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 390235002456 active site 390235002457 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 390235002458 Transglycosylase; Region: Transgly; pfam00912 390235002459 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 390235002460 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 390235002461 TPR motif; other site 390235002462 binding surface 390235002463 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 390235002464 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 390235002465 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 390235002466 PYR/PP interface [polypeptide binding]; other site 390235002467 dimer interface [polypeptide binding]; other site 390235002468 TPP binding site [chemical binding]; other site 390235002469 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235002470 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 390235002471 TPP-binding site [chemical binding]; other site 390235002472 dimer interface [polypeptide binding]; other site 390235002473 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 390235002474 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 390235002475 putative valine binding site [chemical binding]; other site 390235002476 dimer interface [polypeptide binding]; other site 390235002477 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 390235002478 ketol-acid reductoisomerase; Provisional; Region: PRK05479 390235002479 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 390235002480 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 390235002481 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 390235002482 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 390235002483 TMAO/DMSO reductase; Reviewed; Region: PRK05363 390235002484 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 390235002485 Moco binding site; other site 390235002486 metal coordination site [ion binding]; other site 390235002487 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 390235002488 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 390235002489 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 390235002490 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 390235002491 Family description; Region: UvrD_C_2; pfam13538 390235002492 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 390235002493 AAA domain; Region: AAA_30; pfam13604 390235002494 Family description; Region: UvrD_C_2; pfam13538 390235002495 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 390235002496 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 390235002497 HAMP domain; Region: HAMP; pfam00672 390235002498 dimerization interface [polypeptide binding]; other site 390235002499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235002500 metal binding site [ion binding]; metal-binding site 390235002501 active site 390235002502 I-site; other site 390235002503 putative outer membrane lipoprotein; Provisional; Region: PRK09967 390235002504 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235002505 ligand binding site [chemical binding]; other site 390235002506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002508 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 390235002509 dimerization interface [polypeptide binding]; other site 390235002510 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 390235002511 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 390235002512 tetrameric interface [polypeptide binding]; other site 390235002513 NAD binding site [chemical binding]; other site 390235002514 catalytic residues [active] 390235002515 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235002516 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 390235002517 Protein of unknown function (DUF796); Region: DUF796; pfam05638 390235002518 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 390235002519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002521 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 390235002522 dimerization interface [polypeptide binding]; other site 390235002523 Uncharacterized conserved protein [Function unknown]; Region: COG1359 390235002524 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 390235002525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002527 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 390235002528 dimerization interface [polypeptide binding]; other site 390235002529 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 390235002530 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 390235002531 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235002532 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 390235002533 dimerization interface [polypeptide binding]; other site 390235002534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235002535 dimer interface [polypeptide binding]; other site 390235002536 putative CheW interface [polypeptide binding]; other site 390235002537 Predicted metalloprotease [General function prediction only]; Region: COG2321 390235002538 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 390235002539 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 390235002540 heterodimer interface [polypeptide binding]; other site 390235002541 multimer interface [polypeptide binding]; other site 390235002542 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 390235002543 active site 390235002544 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 390235002545 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 390235002546 heterodimer interface [polypeptide binding]; other site 390235002547 active site 390235002548 Cupin domain; Region: Cupin_2; pfam07883 390235002549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002551 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 390235002552 putative effector binding pocket; other site 390235002553 dimerization interface [polypeptide binding]; other site 390235002554 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 390235002555 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 390235002556 S-adenosylmethionine binding site [chemical binding]; other site 390235002557 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 390235002558 H+ Antiporter protein; Region: 2A0121; TIGR00900 390235002559 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 390235002560 putative substrate translocation pore; other site 390235002561 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 390235002562 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 390235002563 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 390235002564 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 390235002565 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 390235002566 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 390235002567 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 390235002568 S-adenosylmethionine binding site [chemical binding]; other site 390235002569 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 390235002570 Autoinducer binding domain; Region: Autoind_bind; pfam03472 390235002571 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 390235002572 DNA binding residues [nucleotide binding] 390235002573 dimerization interface [polypeptide binding]; other site 390235002574 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 390235002575 ferredoxin-NADP reductase; Provisional; Region: PRK10926 390235002576 FAD binding pocket [chemical binding]; other site 390235002577 FAD binding motif [chemical binding]; other site 390235002578 phosphate binding motif [ion binding]; other site 390235002579 beta-alpha-beta structure motif; other site 390235002580 NAD binding pocket [chemical binding]; other site 390235002581 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 390235002582 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 390235002583 DNA repair protein RadA; Provisional; Region: PRK11823 390235002584 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 390235002585 Walker A motif; other site 390235002586 ATP binding site [chemical binding]; other site 390235002587 Walker B motif; other site 390235002588 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 390235002589 xanthine permease; Region: pbuX; TIGR03173 390235002590 Chitin binding domain; Region: Chitin_bind_3; pfam03067 390235002591 carbon starvation protein A; Provisional; Region: PRK15015 390235002592 Carbon starvation protein CstA; Region: CstA; pfam02554 390235002593 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 390235002594 Protein of unknown function (DUF466); Region: DUF466; pfam04328 390235002595 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 390235002596 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 390235002597 P-loop, Walker A motif; other site 390235002598 Base recognition motif; other site 390235002599 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 390235002600 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; cl00246 390235002601 FAD binding site [chemical binding]; other site 390235002602 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 390235002603 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 390235002604 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 390235002605 THF binding site; other site 390235002606 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 390235002607 substrate binding site [chemical binding]; other site 390235002608 THF binding site; other site 390235002609 zinc-binding site [ion binding]; other site 390235002610 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 390235002611 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 390235002612 dimer interface [polypeptide binding]; other site 390235002613 active site 390235002614 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 390235002615 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 390235002616 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 390235002617 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 390235002618 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 390235002619 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235002620 HopJ type III effector protein; Region: HopJ; pfam08888 390235002621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 390235002622 dihydromonapterin reductase; Provisional; Region: PRK06483 390235002623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235002624 NAD(P) binding site [chemical binding]; other site 390235002625 active site 390235002626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 390235002627 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 390235002628 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 390235002629 DNA binding residues [nucleotide binding] 390235002630 B12 binding domain; Region: B12-binding_2; pfam02607 390235002631 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 390235002632 PAS domain; Region: PAS_9; pfam13426 390235002633 putative active site [active] 390235002634 heme pocket [chemical binding]; other site 390235002635 flavodoxin; Provisional; Region: PRK05723 390235002636 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235002637 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 390235002638 homodimer interface [polypeptide binding]; other site 390235002639 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 390235002640 NAD binding site [chemical binding]; other site 390235002641 active site 390235002642 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 390235002643 Transcriptional regulator [Transcription]; Region: IclR; COG1414 390235002644 Bacterial transcriptional regulator; Region: IclR; pfam01614 390235002645 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 390235002646 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 390235002647 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 390235002648 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 390235002649 maleylacetoacetate isomerase; Region: maiA; TIGR01262 390235002650 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 390235002651 C-terminal domain interface [polypeptide binding]; other site 390235002652 GSH binding site (G-site) [chemical binding]; other site 390235002653 putative dimer interface [polypeptide binding]; other site 390235002654 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 390235002655 dimer interface [polypeptide binding]; other site 390235002656 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 390235002657 N-terminal domain interface [polypeptide binding]; other site 390235002658 Uncharacterized conserved protein [Function unknown]; Region: COG2912 390235002659 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 390235002660 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 390235002661 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 390235002662 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 390235002663 NAD binding site [chemical binding]; other site 390235002664 Phe binding site; other site 390235002665 YebG protein; Region: YebG; pfam07130 390235002666 Phosphate-starvation-inducible E; Region: PsiE; cl01264 390235002667 Predicted membrane protein [Function unknown]; Region: COG3223 390235002668 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 390235002669 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 390235002670 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 390235002671 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 390235002672 catalytic residues [active] 390235002673 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 390235002674 Phosphate-starvation-inducible E; Region: PsiE; cl01264 390235002675 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 390235002676 Predicted membrane protein [Function unknown]; Region: COG4655 390235002677 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 390235002678 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 390235002679 PAS fold; Region: PAS_3; pfam08447 390235002680 putative active site [active] 390235002681 heme pocket [chemical binding]; other site 390235002682 PAS domain; Region: PAS; smart00091 390235002683 putative active site [active] 390235002684 heme pocket [chemical binding]; other site 390235002685 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235002686 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 390235002687 dimer interface [polypeptide binding]; other site 390235002688 phosphorylation site [posttranslational modification] 390235002689 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 390235002690 ATP binding site [chemical binding]; other site 390235002691 Mg2+ binding site [ion binding]; other site 390235002692 G-X-G motif; other site 390235002693 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 390235002694 TadE-like protein; Region: TadE; pfam07811 390235002695 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 390235002696 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 390235002697 TPR repeat; Region: TPR_11; pfam13414 390235002698 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 390235002699 binding surface 390235002700 TPR motif; other site 390235002701 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 390235002702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235002703 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 390235002704 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 390235002705 ATP binding site [chemical binding]; other site 390235002706 Walker A motif; other site 390235002707 hexamer interface [polypeptide binding]; other site 390235002708 Walker B motif; other site 390235002709 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 390235002710 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 390235002711 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 390235002712 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 390235002713 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235002714 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 390235002715 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 390235002716 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 390235002717 active site 390235002718 phosphorylation site [posttranslational modification] 390235002719 intermolecular recognition site; other site 390235002720 dimerization interface [polypeptide binding]; other site 390235002721 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; cl00250 390235002722 30S subunit binding site; other site 390235002723 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235002724 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 390235002725 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235002726 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 390235002727 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 390235002728 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235002729 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 390235002730 DNA binding residues [nucleotide binding] 390235002731 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235002732 FecR protein; Region: FecR; pfam04773 390235002733 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235002734 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 390235002735 N-terminal plug; other site 390235002736 ligand-binding site [chemical binding]; other site 390235002737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235002738 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235002739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235002740 EamA-like transporter family; Region: EamA; pfam00892 390235002741 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 390235002742 Predicted membrane protein [Function unknown]; Region: COG2246 390235002743 GtrA-like protein; Region: GtrA; pfam04138 390235002744 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 390235002745 Ligand binding site; other site 390235002746 Putative Catalytic site; other site 390235002747 DXD motif; other site 390235002748 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 390235002749 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 390235002750 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 390235002751 dimerization interface [polypeptide binding]; other site 390235002752 ligand binding site [chemical binding]; other site 390235002753 NADP binding site [chemical binding]; other site 390235002754 catalytic site [active] 390235002755 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002756 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002757 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 390235002758 putative effector binding pocket; other site 390235002759 dimerization interface [polypeptide binding]; other site 390235002760 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235002761 Fusaric acid resistance protein family; Region: FUSC; pfam04632 390235002762 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 390235002763 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 390235002764 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 390235002765 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235002766 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002767 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 390235002768 Ligand Binding Site [chemical binding]; other site 390235002769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235002770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235002771 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 390235002772 putative substrate binding pocket [chemical binding]; other site 390235002773 putative dimerization interface [polypeptide binding]; other site 390235002774 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 390235002775 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 390235002776 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 390235002777 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235002778 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002779 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235002780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235002781 short chain dehydrogenase; Provisional; Region: PRK05693 390235002782 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 390235002783 NADP binding site [chemical binding]; other site 390235002784 active site 390235002785 steroid binding site; other site 390235002786 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 390235002787 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 390235002788 Substrate binding site; other site 390235002789 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 390235002790 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 390235002791 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 390235002792 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 390235002793 active site 390235002794 Right handed beta helix region; Region: Beta_helix; pfam13229 390235002795 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 390235002796 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 390235002797 Sel1-like repeats; Region: SEL1; smart00671 390235002798 PilZ domain; Region: PilZ; pfam07238 390235002799 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002800 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235002801 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 390235002802 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 390235002803 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 390235002804 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 390235002805 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 390235002806 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235002807 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 390235002808 Walker A/P-loop; other site 390235002809 ATP binding site [chemical binding]; other site 390235002810 Q-loop/lid; other site 390235002811 ABC transporter signature motif; other site 390235002812 Walker B; other site 390235002813 D-loop; other site 390235002814 H-loop/switch region; other site 390235002815 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235002816 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 390235002817 FtsX-like permease family; Region: FtsX; pfam02687 390235002818 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 390235002819 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235002820 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235002821 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235002822 hypothetical protein; Validated; Region: PRK02101 390235002823 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 390235002824 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 390235002825 NodB motif; other site 390235002826 active site 390235002827 catalytic site [active] 390235002828 metal binding site [ion binding]; metal-binding site 390235002829 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 390235002830 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 390235002831 putative active site [active] 390235002832 PhoH-like protein; Region: PhoH; pfam02562 390235002833 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 390235002834 trimer interface [polypeptide binding]; other site 390235002835 dimer interface [polypeptide binding]; other site 390235002836 putative active site [active] 390235002837 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 390235002838 MoaE interaction surface [polypeptide binding]; other site 390235002839 MoeB interaction surface [polypeptide binding]; other site 390235002840 thiocarboxylated glycine; other site 390235002841 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 390235002842 MoaD interaction [polypeptide binding]; other site 390235002843 active site residues [active] 390235002844 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 390235002845 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 390235002846 ATP binding site [chemical binding]; other site 390235002847 Mg++ binding site [ion binding]; other site 390235002848 motif III; other site 390235002849 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 390235002850 nucleotide binding region [chemical binding]; other site 390235002851 ATP-binding site [chemical binding]; other site 390235002852 putative hydrolase; Provisional; Region: PRK11460 390235002853 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 390235002854 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235002855 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 390235002856 substrate binding pocket [chemical binding]; other site 390235002857 membrane-bound complex binding site; other site 390235002858 hinge residues; other site 390235002859 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 390235002860 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 390235002861 conserved gate region; other site 390235002862 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 390235002863 dimer interface [polypeptide binding]; other site 390235002864 ABC-ATPase subunit interface; other site 390235002865 putative PBP binding loops; other site 390235002866 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235002867 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 390235002868 dimer interface [polypeptide binding]; other site 390235002869 conserved gate region; other site 390235002870 putative PBP binding loops; other site 390235002871 ABC-ATPase subunit interface; other site 390235002872 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 390235002873 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235002874 Walker A/P-loop; other site 390235002875 ATP binding site [chemical binding]; other site 390235002876 Q-loop/lid; other site 390235002877 ABC transporter signature motif; other site 390235002878 Walker B; other site 390235002879 D-loop; other site 390235002880 H-loop/switch region; other site 390235002881 serine endoprotease; Provisional; Region: PRK10898 390235002882 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 390235002883 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 390235002884 protein binding site [polypeptide binding]; other site 390235002885 Uncharacterized conserved protein [Function unknown]; Region: COG0327 390235002886 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 390235002887 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 390235002888 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 390235002889 Active Sites [active] 390235002890 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 390235002891 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 390235002892 CysD dimerization site [polypeptide binding]; other site 390235002893 G1 box; other site 390235002894 putative GEF interaction site [polypeptide binding]; other site 390235002895 GTP/Mg2+ binding site [chemical binding]; other site 390235002896 Switch I region; other site 390235002897 G2 box; other site 390235002898 G3 box; other site 390235002899 Switch II region; other site 390235002900 G4 box; other site 390235002901 G5 box; other site 390235002902 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 390235002903 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 390235002904 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 390235002905 ligand-binding site [chemical binding]; other site 390235002906 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 390235002907 mannose binding site [chemical binding]; other site 390235002908 dimerization interface [polypeptide binding]; other site 390235002909 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235002910 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 390235002911 putative DNA binding site [nucleotide binding]; other site 390235002912 putative Zn2+ binding site [ion binding]; other site 390235002913 AsnC family; Region: AsnC_trans_reg; pfam01037 390235002914 methionine gamma-lyase; Provisional; Region: PRK07503 390235002915 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 390235002916 homodimer interface [polypeptide binding]; other site 390235002917 substrate-cofactor binding pocket; other site 390235002918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235002919 catalytic residue [active] 390235002920 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 390235002921 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 390235002922 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 390235002923 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 390235002924 active site 390235002925 HIGH motif; other site 390235002926 dimer interface [polypeptide binding]; other site 390235002927 KMSKS motif; other site 390235002928 Predicted ATPase [General function prediction only]; Region: COG1485 390235002929 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235002930 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 390235002931 conserved cys residue [active] 390235002932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235002933 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 390235002934 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235002935 active site 390235002936 catalytic tetrad [active] 390235002937 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 390235002938 23S rRNA interface [nucleotide binding]; other site 390235002939 L3 interface [polypeptide binding]; other site 390235002940 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 390235002941 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 390235002942 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 390235002943 [2Fe-2S] cluster binding site [ion binding]; other site 390235002944 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 390235002945 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 390235002946 Qi binding site; other site 390235002947 intrachain domain interface; other site 390235002948 interchain domain interface [polypeptide binding]; other site 390235002949 heme bH binding site [chemical binding]; other site 390235002950 heme bL binding site [chemical binding]; other site 390235002951 Qo binding site; other site 390235002952 interchain domain interface [polypeptide binding]; other site 390235002953 intrachain domain interface; other site 390235002954 Qi binding site; other site 390235002955 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 390235002956 Qo binding site; other site 390235002957 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 390235002958 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 390235002959 stringent starvation protein A; Provisional; Region: sspA; PRK09481 390235002960 C-terminal domain interface [polypeptide binding]; other site 390235002961 putative GSH binding site (G-site) [chemical binding]; other site 390235002962 dimer interface [polypeptide binding]; other site 390235002963 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 390235002964 dimer interface [polypeptide binding]; other site 390235002965 N-terminal domain interface [polypeptide binding]; other site 390235002966 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 390235002967 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 390235002968 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 390235002969 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 390235002970 BON domain; Region: BON; pfam04972 390235002971 BON domain; Region: BON; pfam04972 390235002972 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 390235002973 dimer interface [polypeptide binding]; other site 390235002974 active site 390235002975 hypothetical protein; Reviewed; Region: PRK12497 390235002976 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 390235002977 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 390235002978 putative ligand binding site [chemical binding]; other site 390235002979 Predicted methyltransferases [General function prediction only]; Region: COG0313 390235002980 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 390235002981 putative SAM binding site [chemical binding]; other site 390235002982 putative homodimer interface [polypeptide binding]; other site 390235002983 cell division protein MraZ; Reviewed; Region: PRK00326 390235002984 MraZ protein; Region: MraZ; pfam02381 390235002985 MraZ protein; Region: MraZ; pfam02381 390235002986 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 390235002987 MraW methylase family; Region: Methyltransf_5; cl17771 390235002988 Cell division protein FtsL; Region: FtsL; pfam04999 390235002989 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 390235002990 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 390235002991 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 390235002992 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 390235002993 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 390235002994 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235002995 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 390235002996 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 390235002997 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 390235002998 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235002999 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 390235003000 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 390235003001 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 390235003002 Mg++ binding site [ion binding]; other site 390235003003 putative catalytic motif [active] 390235003004 putative substrate binding site [chemical binding]; other site 390235003005 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 390235003006 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235003007 cell division protein FtsW; Region: ftsW; TIGR02614 390235003008 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 390235003009 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 390235003010 active site 390235003011 homodimer interface [polypeptide binding]; other site 390235003012 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 390235003013 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 390235003014 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235003015 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 390235003016 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 390235003017 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 390235003018 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235003019 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 390235003020 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 390235003021 Cell division protein FtsQ; Region: FtsQ; pfam03799 390235003022 cell division protein FtsA; Region: ftsA; TIGR01174 390235003023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 390235003024 nucleotide binding site [chemical binding]; other site 390235003025 Cell division protein FtsA; Region: FtsA; pfam14450 390235003026 cell division protein FtsZ; Validated; Region: PRK09330 390235003027 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 390235003028 nucleotide binding site [chemical binding]; other site 390235003029 SulA interaction site; other site 390235003030 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 390235003031 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 390235003032 Protein of unknown function (DUF721); Region: DUF721; pfam05258 390235003033 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 390235003034 DEAD/DEAH box helicase; Region: DEAD; pfam00270 390235003035 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 390235003036 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 390235003037 nucleotide binding region [chemical binding]; other site 390235003038 ATP-binding site [chemical binding]; other site 390235003039 SEC-C motif; Region: SEC-C; pfam02810 390235003040 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 390235003041 heterotetramer interface [polypeptide binding]; other site 390235003042 active site pocket [active] 390235003043 cleavage site 390235003044 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 390235003045 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235003046 putative C-terminal domain interface [polypeptide binding]; other site 390235003047 putative GSH binding site (G-site) [chemical binding]; other site 390235003048 putative dimer interface [polypeptide binding]; other site 390235003049 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 390235003050 putative substrate binding pocket (H-site) [chemical binding]; other site 390235003051 putative N-terminal domain interface [polypeptide binding]; other site 390235003052 hypothetical protein; Provisional; Region: PRK08999 390235003053 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 390235003054 active site 390235003055 8-oxo-dGMP binding site [chemical binding]; other site 390235003056 nudix motif; other site 390235003057 metal binding site [ion binding]; metal-binding site 390235003058 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 390235003059 thiamine phosphate binding site [chemical binding]; other site 390235003060 active site 390235003061 pyrophosphate binding site [ion binding]; other site 390235003062 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 390235003063 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235003064 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 390235003065 dimerization interface [polypeptide binding]; other site 390235003066 PAS domain; Region: PAS; smart00091 390235003067 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 390235003068 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 390235003069 dimer interface [polypeptide binding]; other site 390235003070 phosphorylation site [posttranslational modification] 390235003071 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 390235003072 ATP binding site [chemical binding]; other site 390235003073 Mg2+ binding site [ion binding]; other site 390235003074 G-X-G motif; other site 390235003075 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 390235003076 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 390235003077 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 390235003078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 390235003079 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 390235003080 mechanosensitive channel MscS; Provisional; Region: PRK10334 390235003081 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235003082 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 390235003083 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 390235003084 muropeptide transporter; Validated; Region: ampG; cl17669 390235003085 muropeptide transporter; Validated; Region: ampG; cl17669 390235003086 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 390235003087 DNA binding site [nucleotide binding] 390235003088 active site 390235003089 Protein of unknown function, DUF481; Region: DUF481; pfam04338 390235003090 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 390235003091 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 390235003092 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 390235003093 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 390235003094 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 390235003095 oligomerisation interface [polypeptide binding]; other site 390235003096 mobile loop; other site 390235003097 roof hairpin; other site 390235003098 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 390235003099 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 390235003100 ring oligomerisation interface [polypeptide binding]; other site 390235003101 ATP/Mg binding site [chemical binding]; other site 390235003102 stacking interactions; other site 390235003103 hinge regions; other site 390235003104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235003105 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 390235003106 active site 390235003107 phosphorylation site [posttranslational modification] 390235003108 intermolecular recognition site; other site 390235003109 dimerization interface [polypeptide binding]; other site 390235003110 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 390235003111 DNA binding site [nucleotide binding] 390235003112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235003113 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 390235003114 dimer interface [polypeptide binding]; other site 390235003115 phosphorylation site [posttranslational modification] 390235003116 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 390235003117 ATP binding site [chemical binding]; other site 390235003118 Mg2+ binding site [ion binding]; other site 390235003119 G-X-G motif; other site 390235003120 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235003121 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 390235003122 S-adenosylmethionine binding site [chemical binding]; other site 390235003123 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 390235003124 multidrug efflux protein; Reviewed; Region: PRK09579 390235003125 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235003126 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235003127 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 390235003129 Imelysin; Region: Peptidase_M75; cl09159 390235003130 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 390235003131 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 390235003132 Imelysin; Region: Peptidase_M75; cl09159 390235003133 biofilm formation regulator HmsP; Provisional; Region: PRK11829 390235003134 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235003135 metal binding site [ion binding]; metal-binding site 390235003136 active site 390235003137 I-site; other site 390235003138 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 390235003139 superoxide dismutase; Provisional; Region: PRK10543 390235003140 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 390235003141 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 390235003142 Lysine efflux permease [General function prediction only]; Region: COG1279 390235003143 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 390235003144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235003145 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 390235003146 dimerization interface [polypeptide binding]; other site 390235003147 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235003148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235003149 NAD(P) binding site [chemical binding]; other site 390235003150 active site 390235003151 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 390235003152 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235003153 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 390235003154 FMN binding site [chemical binding]; other site 390235003155 active site 390235003156 substrate binding site [chemical binding]; other site 390235003157 catalytic residue [active] 390235003158 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 390235003159 dimerization interface [polypeptide binding]; other site 390235003160 putative DNA binding site [nucleotide binding]; other site 390235003161 putative Zn2+ binding site [ion binding]; other site 390235003162 Protein of unknown function, DUF479; Region: DUF479; cl01203 390235003163 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 390235003164 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 390235003165 putative acyl-acceptor binding pocket; other site 390235003166 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 390235003167 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235003168 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 390235003169 Beta-lactamase; Region: Beta-lactamase; pfam00144 390235003170 YceI-like domain; Region: YceI; pfam04264 390235003171 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 390235003172 putative active site [active] 390235003173 catalytic site [active] 390235003174 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 390235003175 PLD-like domain; Region: PLDc_2; pfam13091 390235003176 putative active site [active] 390235003177 catalytic site [active] 390235003178 intracellular protease, PfpI family; Region: PfpI; TIGR01382 390235003179 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 390235003180 conserved cys residue [active] 390235003181 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 390235003182 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 390235003183 Predicted amidohydrolase [General function prediction only]; Region: COG0388 390235003184 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 390235003185 putative active site [active] 390235003186 catalytic triad [active] 390235003187 putative dimer interface [polypeptide binding]; other site 390235003188 putative fumarate hydratase; Provisional; Region: PRK15392 390235003189 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 390235003190 Fumarase C-terminus; Region: Fumerase_C; pfam05683 390235003191 hypothetical protein; Provisional; Region: PRK05713 390235003192 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 390235003193 catalytic loop [active] 390235003194 iron binding site [ion binding]; other site 390235003195 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 390235003196 FAD binding pocket [chemical binding]; other site 390235003197 conserved FAD binding motif [chemical binding]; other site 390235003198 phosphate binding motif [ion binding]; other site 390235003199 beta-alpha-beta structure motif; other site 390235003200 NAD binding pocket [chemical binding]; other site 390235003201 pyruvate kinase; Provisional; Region: PRK05826 390235003202 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 390235003203 domain interfaces; other site 390235003204 active site 390235003205 PilZ domain; Region: PilZ; pfam07238 390235003206 exonuclease I; Provisional; Region: sbcB; PRK11779 390235003207 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 390235003208 active site 390235003209 catalytic site [active] 390235003210 substrate binding site [chemical binding]; other site 390235003211 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 390235003212 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 390235003213 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 390235003214 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 390235003215 putative active site [active] 390235003216 putative substrate binding site [chemical binding]; other site 390235003217 putative cosubstrate binding site; other site 390235003218 catalytic site [active] 390235003219 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 390235003220 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 390235003221 Predicted deacetylase [General function prediction only]; Region: COG3233 390235003222 putative active site [active] 390235003223 putative Zn binding site [ion binding]; other site 390235003224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235003225 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 390235003226 Cache domain; Region: Cache_1; pfam02743 390235003227 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 390235003228 dimerization interface [polypeptide binding]; other site 390235003229 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235003230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235003231 dimer interface [polypeptide binding]; other site 390235003232 putative CheW interface [polypeptide binding]; other site 390235003233 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 390235003234 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 390235003235 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 390235003236 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 390235003237 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 390235003238 Bacterial transcriptional regulator; Region: IclR; pfam01614 390235003239 benzoate transport; Region: 2A0115; TIGR00895 390235003240 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 390235003241 putative substrate translocation pore; other site 390235003242 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 390235003243 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 390235003244 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 390235003245 dimer interface [polypeptide binding]; other site 390235003246 active site 390235003247 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 390235003248 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 390235003249 putative substrate translocation pore; other site 390235003250 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 390235003251 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 390235003252 tetramer interface [polypeptide binding]; other site 390235003253 active site 390235003254 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 390235003255 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 390235003256 Predicted membrane protein [Function unknown]; Region: COG4539 390235003257 outer membrane porin, OprD family; Region: OprD; pfam03573 390235003258 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235003259 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 390235003260 Protein export membrane protein; Region: SecD_SecF; cl14618 390235003261 Protein export membrane protein; Region: SecD_SecF; cl14618 390235003262 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 390235003263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235003264 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235003265 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 390235003266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235003267 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 390235003268 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 390235003269 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235003270 putative substrate translocation pore; other site 390235003271 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 390235003272 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 390235003273 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 390235003274 tetramer interface [polypeptide binding]; other site 390235003275 active site 390235003276 Mg2+/Mn2+ binding site [ion binding]; other site 390235003277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235003278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235003279 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 390235003280 putative effector binding pocket; other site 390235003281 dimerization interface [polypeptide binding]; other site 390235003282 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 390235003283 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 390235003284 NADH(P)-binding; Region: NAD_binding_10; pfam13460 390235003285 NAD binding site [chemical binding]; other site 390235003286 substrate binding site [chemical binding]; other site 390235003287 putative active site [active] 390235003288 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235003289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235003290 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 390235003291 substrate binding pocket [chemical binding]; other site 390235003292 dimerization interface [polypeptide binding]; other site 390235003293 hypothetical protein; Provisional; Region: PRK07524 390235003294 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 390235003295 PYR/PP interface [polypeptide binding]; other site 390235003296 dimer interface [polypeptide binding]; other site 390235003297 TPP binding site [chemical binding]; other site 390235003298 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235003299 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 390235003300 TPP-binding site [chemical binding]; other site 390235003301 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 390235003302 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235003303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235003304 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 390235003305 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 390235003306 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 390235003307 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 390235003308 putative substrate translocation pore; other site 390235003309 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235003310 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 390235003311 active site 390235003312 phosphorylation site [posttranslational modification] 390235003313 intermolecular recognition site; other site 390235003314 dimerization interface [polypeptide binding]; other site 390235003315 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 390235003316 Walker A motif; other site 390235003317 ATP binding site [chemical binding]; other site 390235003318 Walker B motif; other site 390235003319 arginine finger; other site 390235003320 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 390235003321 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 390235003322 dimer interface [polypeptide binding]; other site 390235003323 phosphorylation site [posttranslational modification] 390235003324 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 390235003325 ATP binding site [chemical binding]; other site 390235003326 Mg2+ binding site [ion binding]; other site 390235003327 G-X-G motif; other site 390235003328 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 390235003329 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 390235003330 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 390235003331 Repair protein; Region: Repair_PSII; cl01535 390235003332 Methyltransferase domain; Region: Methyltransf_31; pfam13847 390235003333 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 390235003334 S-adenosylmethionine binding site [chemical binding]; other site 390235003335 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 390235003336 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 390235003337 active site 390235003338 catalytic site [active] 390235003339 metal binding site [ion binding]; metal-binding site 390235003340 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235003341 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 390235003342 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 390235003343 active site 390235003344 uracil binding [chemical binding]; other site 390235003345 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 390235003346 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 390235003347 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 390235003348 substrate binding site [chemical binding]; other site 390235003349 oxyanion hole (OAH) forming residues; other site 390235003350 trimer interface [polypeptide binding]; other site 390235003351 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 390235003352 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 390235003353 ligand binding site [chemical binding]; other site 390235003354 active site 390235003355 UGI interface [polypeptide binding]; other site 390235003356 catalytic site [active] 390235003357 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 390235003358 Putative ammonia monooxygenase; Region: AmoA; pfam05145 390235003359 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 390235003360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 390235003361 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 390235003362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 390235003363 outer membrane porin, OprD family; Region: OprD; pfam03573 390235003364 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 390235003365 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 390235003366 active site 390235003367 phosphorylation site [posttranslational modification] 390235003368 intermolecular recognition site; other site 390235003369 dimerization interface [polypeptide binding]; other site 390235003370 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 390235003371 DNA binding site [nucleotide binding] 390235003372 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 390235003373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235003374 HAMP domain; Region: HAMP; pfam00672 390235003375 dimerization interface [polypeptide binding]; other site 390235003376 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 390235003377 dimer interface [polypeptide binding]; other site 390235003378 phosphorylation site [posttranslational modification] 390235003379 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 390235003380 ATP binding site [chemical binding]; other site 390235003381 Mg2+ binding site [ion binding]; other site 390235003382 G-X-G motif; other site 390235003383 HDOD domain; Region: HDOD; pfam08668 390235003384 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 390235003385 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 390235003386 Uncharacterized conserved protein [Function unknown]; Region: COG2938 390235003387 L-aspartate oxidase; Provisional; Region: PRK09077 390235003388 L-aspartate oxidase; Provisional; Region: PRK06175 390235003389 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 390235003390 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 390235003391 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235003392 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 390235003393 DNA binding residues [nucleotide binding] 390235003394 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 390235003395 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 390235003396 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 390235003397 anti-sigma E factor; Provisional; Region: rseB; PRK09455 390235003398 MucB/RseB family; Region: MucB_RseB; pfam03888 390235003399 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 390235003400 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 390235003401 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 390235003402 protein binding site [polypeptide binding]; other site 390235003403 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 390235003404 protein binding site [polypeptide binding]; other site 390235003405 GTP-binding protein LepA; Provisional; Region: PRK05433 390235003406 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 390235003407 G1 box; other site 390235003408 putative GEF interaction site [polypeptide binding]; other site 390235003409 GTP/Mg2+ binding site [chemical binding]; other site 390235003410 Switch I region; other site 390235003411 G2 box; other site 390235003412 G3 box; other site 390235003413 Switch II region; other site 390235003414 G4 box; other site 390235003415 G5 box; other site 390235003416 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 390235003417 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 390235003418 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 390235003419 signal peptidase I; Provisional; Region: PRK10861 390235003420 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 390235003421 Catalytic site [active] 390235003422 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 390235003423 ribonuclease III; Reviewed; Region: rnc; PRK00102 390235003424 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 390235003425 dimerization interface [polypeptide binding]; other site 390235003426 active site 390235003427 metal binding site [ion binding]; metal-binding site 390235003428 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 390235003429 dsRNA binding site [nucleotide binding]; other site 390235003430 GTPase Era; Reviewed; Region: era; PRK00089 390235003431 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 390235003432 G1 box; other site 390235003433 GTP/Mg2+ binding site [chemical binding]; other site 390235003434 Switch I region; other site 390235003435 G2 box; other site 390235003436 Switch II region; other site 390235003437 G3 box; other site 390235003438 G4 box; other site 390235003439 G5 box; other site 390235003440 KH domain; Region: KH_2; pfam07650 390235003441 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 390235003442 Recombination protein O N terminal; Region: RecO_N; pfam11967 390235003443 Recombination protein O C terminal; Region: RecO_C; pfam02565 390235003444 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 390235003445 active site 390235003446 hydrophilic channel; other site 390235003447 dimerization interface [polypeptide binding]; other site 390235003448 catalytic residues [active] 390235003449 active site lid [active] 390235003450 Methyltransferase domain; Region: Methyltransf_31; pfam13847 390235003451 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 390235003452 S-adenosylmethionine binding site [chemical binding]; other site 390235003453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235003454 active site 390235003455 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 390235003456 S-adenosylmethionine binding site [chemical binding]; other site 390235003457 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 390235003458 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 390235003459 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 390235003460 Walker A motif; other site 390235003461 ATP binding site [chemical binding]; other site 390235003462 Walker B motif; other site 390235003463 arginine finger; other site 390235003464 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 390235003465 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 390235003466 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 390235003467 Trp docking motif [polypeptide binding]; other site 390235003468 putative active site [active] 390235003469 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 390235003470 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 390235003471 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 390235003472 N-terminal plug; other site 390235003473 ligand-binding site [chemical binding]; other site 390235003474 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 390235003475 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 390235003476 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 390235003477 FAD binding pocket [chemical binding]; other site 390235003478 FAD binding motif [chemical binding]; other site 390235003479 phosphate binding motif [ion binding]; other site 390235003480 NAD binding pocket [chemical binding]; other site 390235003481 Predicted transcriptional regulators [Transcription]; Region: COG1695 390235003482 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 390235003483 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 390235003484 Transglycosylase; Region: Transgly; cl17702 390235003485 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 390235003486 Spore germination protein; Region: Spore_permease; cl17796 390235003487 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 390235003488 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 390235003489 active site 390235003490 FMN binding site [chemical binding]; other site 390235003491 substrate binding site [chemical binding]; other site 390235003492 3Fe-4S cluster binding site [ion binding]; other site 390235003493 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 390235003494 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 390235003495 ATP binding site [chemical binding]; other site 390235003496 putative Mg++ binding site [ion binding]; other site 390235003497 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 390235003498 nucleotide binding region [chemical binding]; other site 390235003499 ATP-binding site [chemical binding]; other site 390235003500 DEAD/H associated; Region: DEAD_assoc; pfam08494 390235003501 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_31; cd04690 390235003502 nudix motif; other site 390235003503 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 390235003504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235003505 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 390235003506 putative dimerization interface [polypeptide binding]; other site 390235003507 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 390235003508 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235003509 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235003510 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 390235003511 active site 390235003512 phosphorylation site [posttranslational modification] 390235003513 intermolecular recognition site; other site 390235003514 dimerization interface [polypeptide binding]; other site 390235003515 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 390235003516 Walker A motif; other site 390235003517 ATP binding site [chemical binding]; other site 390235003518 Walker B motif; other site 390235003519 arginine finger; other site 390235003520 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235003521 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 390235003522 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 390235003523 dimer interface [polypeptide binding]; other site 390235003524 phosphorylation site [posttranslational modification] 390235003525 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 390235003526 Mg2+ binding site [ion binding]; other site 390235003527 G-X-G motif; other site 390235003528 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 390235003529 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235003530 Walker A/P-loop; other site 390235003531 ATP binding site [chemical binding]; other site 390235003532 Q-loop/lid; other site 390235003533 ABC transporter signature motif; other site 390235003534 Walker B; other site 390235003535 D-loop; other site 390235003536 H-loop/switch region; other site 390235003537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235003538 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 390235003539 dimer interface [polypeptide binding]; other site 390235003540 conserved gate region; other site 390235003541 putative PBP binding loops; other site 390235003542 ABC-ATPase subunit interface; other site 390235003543 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 390235003544 dimer interface [polypeptide binding]; other site 390235003545 conserved gate region; other site 390235003546 putative PBP binding loops; other site 390235003547 ABC-ATPase subunit interface; other site 390235003548 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 390235003549 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 390235003550 substrate binding pocket [chemical binding]; other site 390235003551 membrane-bound complex binding site; other site 390235003552 hinge residues; other site 390235003553 Leucine rich repeat; Region: LRR_8; pfam13855 390235003554 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 390235003555 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235003556 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 390235003557 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 390235003558 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 390235003559 glycerol kinase; Provisional; Region: glpK; PRK00047 390235003560 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 390235003561 N- and C-terminal domain interface [polypeptide binding]; other site 390235003562 active site 390235003563 MgATP binding site [chemical binding]; other site 390235003564 catalytic site [active] 390235003565 metal binding site [ion binding]; metal-binding site 390235003566 glycerol binding site [chemical binding]; other site 390235003567 homotetramer interface [polypeptide binding]; other site 390235003568 homodimer interface [polypeptide binding]; other site 390235003569 protein IIAGlc interface [polypeptide binding]; other site 390235003570 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 390235003571 amphipathic channel; other site 390235003572 Asn-Pro-Ala signature motifs; other site 390235003573 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 390235003574 putative deacylase active site [active] 390235003575 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235003576 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 390235003577 Walker A/P-loop; other site 390235003578 ATP binding site [chemical binding]; other site 390235003579 Q-loop/lid; other site 390235003580 ABC transporter signature motif; other site 390235003581 Walker B; other site 390235003582 D-loop; other site 390235003583 H-loop/switch region; other site 390235003584 TOBE domain; Region: TOBE_2; pfam08402 390235003585 ornithine carbamoyltransferase; Provisional; Region: PRK00779 390235003586 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 390235003587 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 390235003588 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 390235003589 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 390235003590 putative [Fe4-S4] binding site [ion binding]; other site 390235003591 putative molybdopterin cofactor binding site [chemical binding]; other site 390235003592 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 390235003593 putative molybdopterin cofactor binding site; other site 390235003594 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 390235003595 putative GSH binding site [chemical binding]; other site 390235003596 catalytic residues [active] 390235003597 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 390235003598 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 390235003599 heme binding site [chemical binding]; other site 390235003600 ferroxidase pore; other site 390235003601 ferroxidase diiron center [ion binding]; other site 390235003602 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 390235003603 peroxidase; Provisional; Region: PRK15000 390235003604 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 390235003605 dimer interface [polypeptide binding]; other site 390235003606 decamer (pentamer of dimers) interface [polypeptide binding]; other site 390235003607 catalytic triad [active] 390235003608 peroxidatic and resolving cysteines [active] 390235003609 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 390235003610 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 390235003611 dimer interface [polypeptide binding]; other site 390235003612 catalytic site [active] 390235003613 putative active site [active] 390235003614 putative substrate binding site [chemical binding]; other site 390235003615 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 390235003616 active site 390235003617 substrate binding pocket [chemical binding]; other site 390235003618 dimer interface [polypeptide binding]; other site 390235003619 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235003620 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235003621 ligand binding site [chemical binding]; other site 390235003622 argininosuccinate synthase; Provisional; Region: PRK13820 390235003623 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 390235003624 ANP binding site [chemical binding]; other site 390235003625 Substrate Binding Site II [chemical binding]; other site 390235003626 Substrate Binding Site I [chemical binding]; other site 390235003627 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235003628 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 390235003629 active site 390235003630 phosphorylation site [posttranslational modification] 390235003631 intermolecular recognition site; other site 390235003632 dimerization interface [polypeptide binding]; other site 390235003633 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 390235003634 DNA binding residues [nucleotide binding] 390235003635 dimerization interface [polypeptide binding]; other site 390235003636 endonuclease III; Provisional; Region: PRK10702 390235003637 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 390235003638 minor groove reading motif; other site 390235003639 helix-hairpin-helix signature motif; other site 390235003640 substrate binding pocket [chemical binding]; other site 390235003641 active site 390235003642 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 390235003643 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 390235003644 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 390235003645 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 390235003646 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 390235003647 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 390235003648 active site 390235003649 HIGH motif; other site 390235003650 KMSKS motif; other site 390235003651 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 390235003652 tRNA binding surface [nucleotide binding]; other site 390235003653 anticodon binding site; other site 390235003654 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 390235003655 dimer interface [polypeptide binding]; other site 390235003656 putative tRNA-binding site [nucleotide binding]; other site 390235003657 antiporter inner membrane protein; Provisional; Region: PRK11670 390235003658 Domain of unknown function DUF59; Region: DUF59; pfam01883 390235003659 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 390235003660 Walker A motif; other site 390235003661 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 390235003662 DNA-binding site [nucleotide binding]; DNA binding site 390235003663 RNA-binding motif; other site 390235003664 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 390235003665 trimer interface [polypeptide binding]; other site 390235003666 active site 390235003667 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 390235003668 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 390235003669 putative active site [active] 390235003670 putative metal binding site [ion binding]; other site 390235003671 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 390235003672 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 390235003673 ATP binding site [chemical binding]; other site 390235003674 putative Mg++ binding site [ion binding]; other site 390235003675 nucleotide binding region [chemical binding]; other site 390235003676 helicase superfamily c-terminal domain; Region: HELICc; smart00490 390235003677 ATP-binding site [chemical binding]; other site 390235003678 DEAD/H associated; Region: DEAD_assoc; pfam08494 390235003679 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 390235003680 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 390235003681 active site 390235003682 Zn binding site [ion binding]; other site 390235003683 ATP-dependent DNA ligase; Validated; Region: PRK09247 390235003684 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 390235003685 active site 390235003686 DNA binding site [nucleotide binding] 390235003687 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 390235003688 DNA binding site [nucleotide binding] 390235003689 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 390235003690 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 390235003691 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 390235003692 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 390235003693 active site 390235003694 SEC-C motif; Region: SEC-C; pfam02810 390235003695 Water Stress and Hypersensitive response; Region: WHy; smart00769 390235003696 hypothetical protein; Provisional; Region: PRK00183 390235003697 SEC-C motif; Region: SEC-C; pfam02810 390235003698 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235003699 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235003700 ligand binding site [chemical binding]; other site 390235003701 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235003702 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235003703 ligand binding site [chemical binding]; other site 390235003704 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 390235003705 Predicted integral membrane protein [Function unknown]; Region: COG5615 390235003706 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 390235003707 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 390235003708 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 390235003709 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 390235003710 Beta-lactamase; Region: Beta-lactamase; pfam00144 390235003711 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235003712 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235003713 ligand binding site [chemical binding]; other site 390235003714 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 390235003715 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 390235003716 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 390235003717 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 390235003718 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 390235003719 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235003720 Predicted membrane protein [Function unknown]; Region: COG3650 390235003721 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 390235003722 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 390235003723 Walker A/P-loop; other site 390235003724 ATP binding site [chemical binding]; other site 390235003725 Q-loop/lid; other site 390235003726 ABC transporter signature motif; other site 390235003727 Walker B; other site 390235003728 D-loop; other site 390235003729 H-loop/switch region; other site 390235003730 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 390235003731 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 390235003732 Walker A/P-loop; other site 390235003733 ATP binding site [chemical binding]; other site 390235003734 Q-loop/lid; other site 390235003735 ABC transporter signature motif; other site 390235003736 Walker B; other site 390235003737 D-loop; other site 390235003738 H-loop/switch region; other site 390235003739 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 390235003740 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 390235003741 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 390235003742 TM-ABC transporter signature motif; other site 390235003743 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235003744 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 390235003745 TM-ABC transporter signature motif; other site 390235003746 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 390235003747 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 390235003748 dimerization interface [polypeptide binding]; other site 390235003749 ligand binding site [chemical binding]; other site 390235003750 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 390235003751 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 390235003752 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235003753 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235003754 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 390235003755 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 390235003756 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 390235003757 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235003758 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235003759 metal binding site [ion binding]; metal-binding site 390235003760 active site 390235003761 I-site; other site 390235003762 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 390235003763 ATP-dependent helicase HepA; Validated; Region: PRK04914 390235003764 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 390235003765 ATP binding site [chemical binding]; other site 390235003766 putative Mg++ binding site [ion binding]; other site 390235003767 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 390235003768 nucleotide binding region [chemical binding]; other site 390235003769 ATP-binding site [chemical binding]; other site 390235003770 Fusaric acid resistance protein family; Region: FUSC; pfam04632 390235003771 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 390235003772 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 390235003773 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 390235003774 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235003775 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235003776 GAF domain; Region: GAF; pfam01590 390235003777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235003778 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 390235003779 dimer interface [polypeptide binding]; other site 390235003780 phosphorylation site [posttranslational modification] 390235003781 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 390235003782 ATP binding site [chemical binding]; other site 390235003783 Mg2+ binding site [ion binding]; other site 390235003784 G-X-G motif; other site 390235003785 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 390235003786 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 390235003787 MASE2 domain; Region: MASE2; pfam05230 390235003788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235003789 metal binding site [ion binding]; metal-binding site 390235003790 active site 390235003791 I-site; other site 390235003792 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 390235003793 acetolactate synthase; Reviewed; Region: PRK08322 390235003794 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 390235003795 PYR/PP interface [polypeptide binding]; other site 390235003796 dimer interface [polypeptide binding]; other site 390235003797 TPP binding site [chemical binding]; other site 390235003798 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235003799 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 390235003800 TPP-binding site [chemical binding]; other site 390235003801 dimer interface [polypeptide binding]; other site 390235003802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235003803 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 390235003804 Predicted amidohydrolase [General function prediction only]; Region: COG0388 390235003805 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 390235003806 putative active site [active] 390235003807 catalytic triad [active] 390235003808 putative dimer interface [polypeptide binding]; other site 390235003809 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 390235003810 active site 390235003811 homotetramer interface [polypeptide binding]; other site 390235003812 homodimer interface [polypeptide binding]; other site 390235003813 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 390235003814 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235003815 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 390235003816 putative C-terminal domain interface [polypeptide binding]; other site 390235003817 putative GSH binding site (G-site) [chemical binding]; other site 390235003818 putative dimer interface [polypeptide binding]; other site 390235003819 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 390235003820 putative N-terminal domain interface [polypeptide binding]; other site 390235003821 putative dimer interface [polypeptide binding]; other site 390235003822 putative substrate binding pocket (H-site) [chemical binding]; other site 390235003823 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 390235003824 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 390235003825 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235003826 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 390235003827 FAD binding pocket [chemical binding]; other site 390235003828 FAD binding motif [chemical binding]; other site 390235003829 phosphate binding motif [ion binding]; other site 390235003830 beta-alpha-beta structure motif; other site 390235003831 NAD binding pocket [chemical binding]; other site 390235003832 Heme binding pocket [chemical binding]; other site 390235003833 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 390235003834 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 390235003835 catalytic loop [active] 390235003836 iron binding site [ion binding]; other site 390235003837 transcriptional regulator; Provisional; Region: PRK10632 390235003838 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235003839 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 390235003840 putative effector binding pocket; other site 390235003841 putative dimerization interface [polypeptide binding]; other site 390235003842 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 390235003843 active site 390235003844 catalytic residues [active] 390235003845 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235003846 EamA-like transporter family; Region: EamA; pfam00892 390235003847 DctM-like transporters; Region: DctM; pfam06808 390235003848 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 390235003849 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 390235003850 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 390235003851 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 390235003852 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 390235003853 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235003854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235003855 NAD(P) binding site [chemical binding]; other site 390235003856 active site 390235003857 outer membrane porin, OprD family; Region: OprD; pfam03573 390235003858 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 390235003859 dimer interface [polypeptide binding]; other site 390235003860 putative radical transfer pathway; other site 390235003861 diiron center [ion binding]; other site 390235003862 tyrosyl radical; other site 390235003863 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 390235003864 ATP cone domain; Region: ATP-cone; pfam03477 390235003865 ATP cone domain; Region: ATP-cone; pfam03477 390235003866 Class I ribonucleotide reductase; Region: RNR_I; cd01679 390235003867 active site 390235003868 dimer interface [polypeptide binding]; other site 390235003869 catalytic residues [active] 390235003870 effector binding site; other site 390235003871 R2 peptide binding site; other site 390235003872 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 390235003873 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 390235003874 active site 390235003875 phosphorylation site [posttranslational modification] 390235003876 intermolecular recognition site; other site 390235003877 dimerization interface [polypeptide binding]; other site 390235003878 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 390235003879 DNA binding site [nucleotide binding] 390235003880 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 390235003881 dimerization interface [polypeptide binding]; other site 390235003882 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 390235003883 dimer interface [polypeptide binding]; other site 390235003884 phosphorylation site [posttranslational modification] 390235003885 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 390235003886 ATP binding site [chemical binding]; other site 390235003887 Mg2+ binding site [ion binding]; other site 390235003888 G-X-G motif; other site 390235003889 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 390235003890 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 390235003891 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 390235003892 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235003893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 390235003894 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 390235003895 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 390235003896 active site 390235003897 phosphorylation site [posttranslational modification] 390235003898 intermolecular recognition site; other site 390235003899 dimerization interface [polypeptide binding]; other site 390235003900 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 390235003901 DNA binding site [nucleotide binding] 390235003902 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 390235003903 dimer interface [polypeptide binding]; other site 390235003904 phosphorylation site [posttranslational modification] 390235003905 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 390235003906 ATP binding site [chemical binding]; other site 390235003907 G-X-G motif; other site 390235003908 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 390235003909 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235003910 hypothetical protein; Provisional; Region: PRK04860 390235003911 SprT homologues; Region: SprT; cl01182 390235003912 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 390235003913 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 390235003914 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 390235003915 Ligand Binding Site [chemical binding]; other site 390235003916 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 390235003917 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 390235003918 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 390235003919 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235003920 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 390235003921 ArsC family; Region: ArsC; pfam03960 390235003922 catalytic residues [active] 390235003923 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 390235003924 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 390235003925 catalytic residues [active] 390235003926 META domain; Region: META; pfam03724 390235003927 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 390235003928 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 390235003929 putative ligand binding site [chemical binding]; other site 390235003930 putative NAD binding site [chemical binding]; other site 390235003931 catalytic site [active] 390235003932 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 390235003933 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 390235003934 dimerization interface [polypeptide binding]; other site 390235003935 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 390235003936 dimer interface [polypeptide binding]; other site 390235003937 phosphorylation site [posttranslational modification] 390235003938 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 390235003939 ATP binding site [chemical binding]; other site 390235003940 Mg2+ binding site [ion binding]; other site 390235003941 G-X-G motif; other site 390235003942 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 390235003943 active site 390235003944 phosphorylation site [posttranslational modification] 390235003945 intermolecular recognition site; other site 390235003946 dimerization interface [polypeptide binding]; other site 390235003947 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 390235003948 putative binding surface; other site 390235003949 active site 390235003950 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235003951 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 390235003952 active site 390235003953 phosphorylation site [posttranslational modification] 390235003954 intermolecular recognition site; other site 390235003955 dimerization interface [polypeptide binding]; other site 390235003956 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 390235003957 DNA binding site [nucleotide binding] 390235003958 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235003959 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 390235003960 dimerization interface [polypeptide binding]; other site 390235003961 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 390235003962 dimer interface [polypeptide binding]; other site 390235003963 phosphorylation site [posttranslational modification] 390235003964 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 390235003965 ATP binding site [chemical binding]; other site 390235003966 Mg2+ binding site [ion binding]; other site 390235003967 G-X-G motif; other site 390235003968 cysteine synthase B; Region: cysM; TIGR01138 390235003969 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 390235003970 dimer interface [polypeptide binding]; other site 390235003971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235003972 catalytic residue [active] 390235003973 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 390235003974 TRAM domain; Region: TRAM; pfam01938 390235003975 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 390235003976 S-adenosylmethionine binding site [chemical binding]; other site 390235003977 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 390235003978 HD domain; Region: HD_4; pfam13328 390235003979 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 390235003980 synthetase active site [active] 390235003981 NTP binding site [chemical binding]; other site 390235003982 metal binding site [ion binding]; metal-binding site 390235003983 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 390235003984 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 390235003985 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 390235003986 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 390235003987 homodimer interface [polypeptide binding]; other site 390235003988 metal binding site [ion binding]; metal-binding site 390235003989 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 390235003990 homodimer interface [polypeptide binding]; other site 390235003991 active site 390235003992 putative chemical substrate binding site [chemical binding]; other site 390235003993 metal binding site [ion binding]; metal-binding site 390235003994 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 390235003995 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 390235003996 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 390235003997 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 390235003998 active site 390235003999 substrate binding site [chemical binding]; other site 390235004000 cosubstrate binding site; other site 390235004001 catalytic site [active] 390235004002 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 390235004003 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 390235004004 dimerization interface [polypeptide binding]; other site 390235004005 putative ATP binding site [chemical binding]; other site 390235004006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 390235004007 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 390235004008 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 390235004009 Domain of unknown function DUF20; Region: UPF0118; pfam01594 390235004010 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 390235004011 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 390235004012 Walker A motif; other site 390235004013 ATP binding site [chemical binding]; other site 390235004014 Walker B motif; other site 390235004015 arginine finger; other site 390235004016 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 390235004017 NlpC/P60 family; Region: NLPC_P60; pfam00877 390235004018 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 390235004019 NlpC/P60 family; Region: NLPC_P60; pfam00877 390235004020 transcriptional activator TtdR; Provisional; Region: PRK09801 390235004021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004022 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 390235004023 putative effector binding pocket; other site 390235004024 putative dimerization interface [polypeptide binding]; other site 390235004025 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 390235004026 tartrate dehydrogenase; Region: TTC; TIGR02089 390235004027 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 390235004028 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 390235004029 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 390235004030 Walker A motif; other site 390235004031 homodimer interface [polypeptide binding]; other site 390235004032 ATP binding site [chemical binding]; other site 390235004033 hydroxycobalamin binding site [chemical binding]; other site 390235004034 Walker B motif; other site 390235004035 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 390235004036 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 390235004037 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 390235004038 catalytic triad [active] 390235004039 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 390235004040 putative FMN binding site [chemical binding]; other site 390235004041 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 390235004042 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 390235004043 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 390235004044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004045 homodimer interface [polypeptide binding]; other site 390235004046 catalytic residue [active] 390235004047 cobyric acid synthase; Provisional; Region: PRK00784 390235004048 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 390235004049 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 390235004050 catalytic triad [active] 390235004051 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 390235004052 homotrimer interface [polypeptide binding]; other site 390235004053 Walker A motif; other site 390235004054 GTP binding site [chemical binding]; other site 390235004055 Walker B motif; other site 390235004056 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 390235004057 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 390235004058 putative dimer interface [polypeptide binding]; other site 390235004059 active site pocket [active] 390235004060 putative cataytic base [active] 390235004061 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 390235004062 catalytic core [active] 390235004063 cobalamin synthase; Reviewed; Region: cobS; PRK00235 390235004064 Transcriptional regulators [Transcription]; Region: MarR; COG1846 390235004065 MarR family; Region: MarR_2; pfam12802 390235004066 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 390235004067 catalytic residues [active] 390235004068 dimer interface [polypeptide binding]; other site 390235004069 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 390235004070 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 390235004071 RmuC family; Region: RmuC; pfam02646 390235004072 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 390235004073 PAS domain; Region: PAS; smart00091 390235004074 PAS fold; Region: PAS_7; pfam12860 390235004075 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235004076 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 390235004077 dimer interface [polypeptide binding]; other site 390235004078 phosphorylation site [posttranslational modification] 390235004079 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 390235004080 ATP binding site [chemical binding]; other site 390235004081 Mg2+ binding site [ion binding]; other site 390235004082 G-X-G motif; other site 390235004083 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235004084 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 390235004085 active site 390235004086 phosphorylation site [posttranslational modification] 390235004087 intermolecular recognition site; other site 390235004088 dimerization interface [polypeptide binding]; other site 390235004089 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 390235004090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235004091 DNA-binding site [nucleotide binding]; DNA binding site 390235004092 UTRA domain; Region: UTRA; pfam07702 390235004093 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 390235004094 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 390235004095 active site 390235004096 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 390235004097 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 390235004098 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 390235004099 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235004100 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 390235004101 dimerization interface [polypeptide binding]; other site 390235004102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235004103 dimer interface [polypeptide binding]; other site 390235004104 putative CheW interface [polypeptide binding]; other site 390235004105 H+ Antiporter protein; Region: 2A0121; TIGR00900 390235004106 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 390235004107 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 390235004108 putative acyl-acceptor binding pocket; other site 390235004109 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 390235004110 recombination associated protein; Reviewed; Region: rdgC; PRK00321 390235004111 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 390235004112 active site 390235004113 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 390235004114 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 390235004115 [4Fe-4S] binding site [ion binding]; other site 390235004116 molybdopterin cofactor binding site; other site 390235004117 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 390235004118 molybdopterin cofactor binding site; other site 390235004119 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 390235004120 Flavodoxin; Region: Flavodoxin_1; pfam00258 390235004121 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 390235004122 FAD binding pocket [chemical binding]; other site 390235004123 FAD binding motif [chemical binding]; other site 390235004124 catalytic residues [active] 390235004125 NAD binding pocket [chemical binding]; other site 390235004126 phosphate binding motif [ion binding]; other site 390235004127 beta-alpha-beta structure motif; other site 390235004128 nitrite reductase subunit NirD; Provisional; Region: PRK14989 390235004129 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235004130 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 390235004131 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 390235004132 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 390235004133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004134 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 390235004135 dimerization interface [polypeptide binding]; other site 390235004136 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 390235004137 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 390235004138 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235004139 Uncharacterized conserved protein [Function unknown]; Region: COG3339 390235004140 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 390235004141 salt bridge; other site 390235004142 non-specific DNA binding site [nucleotide binding]; other site 390235004143 sequence-specific DNA binding site [nucleotide binding]; other site 390235004144 carboxy-terminal protease; Provisional; Region: PRK11186 390235004145 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 390235004146 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 390235004147 protein binding site [polypeptide binding]; other site 390235004148 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 390235004149 Catalytic dyad [active] 390235004150 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 390235004151 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 390235004152 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 390235004153 NAD(P) binding site [chemical binding]; other site 390235004154 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 390235004155 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 390235004156 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235004157 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235004158 Walker A/P-loop; other site 390235004159 ATP binding site [chemical binding]; other site 390235004160 Q-loop/lid; other site 390235004161 ABC transporter signature motif; other site 390235004162 Walker B; other site 390235004163 D-loop; other site 390235004164 H-loop/switch region; other site 390235004165 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235004166 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 390235004167 dimer interface [polypeptide binding]; other site 390235004168 conserved gate region; other site 390235004169 ABC-ATPase subunit interface; other site 390235004170 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 390235004171 dimer interface [polypeptide binding]; other site 390235004172 conserved gate region; other site 390235004173 putative PBP binding loops; other site 390235004174 ABC-ATPase subunit interface; other site 390235004175 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 390235004176 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 390235004177 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 390235004178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235004179 transcriptional regulator protein; Region: phnR; TIGR03337 390235004180 DNA-binding site [nucleotide binding]; DNA binding site 390235004181 UTRA domain; Region: UTRA; pfam07702 390235004182 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 390235004183 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235004184 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 390235004185 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 390235004186 active site 390235004187 metal binding site [ion binding]; metal-binding site 390235004188 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 390235004189 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 390235004190 active site 390235004191 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 390235004192 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 390235004193 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 390235004194 Switch I; other site 390235004195 Switch II; other site 390235004196 septum formation inhibitor; Reviewed; Region: minC; PRK00339 390235004197 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 390235004198 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 390235004199 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 390235004200 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 390235004201 putative acyl-acceptor binding pocket; other site 390235004202 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 390235004203 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 390235004204 active site 390235004205 nucleophile elbow; other site 390235004206 VacJ like lipoprotein; Region: VacJ; cl01073 390235004207 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 390235004208 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 390235004209 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 390235004210 Predicted membrane protein [Function unknown]; Region: COG3162 390235004211 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 390235004212 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 390235004213 Na binding site [ion binding]; other site 390235004214 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 390235004215 short chain dehydrogenase; Provisional; Region: PRK05650 390235004216 classical (c) SDRs; Region: SDR_c; cd05233 390235004217 NAD(P) binding site [chemical binding]; other site 390235004218 active site 390235004219 Global regulator protein family; Region: CsrA; pfam02599 390235004220 hypothetical protein; Provisional; Region: PRK00304 390235004221 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 390235004222 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 390235004223 putative oligomer interface [polypeptide binding]; other site 390235004224 putative active site [active] 390235004225 metal binding site [ion binding]; metal-binding site 390235004226 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 390235004227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235004228 Coenzyme A binding pocket [chemical binding]; other site 390235004229 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235004230 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 390235004231 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 390235004232 active site 390235004233 dimer interface [polypeptide binding]; other site 390235004234 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 390235004235 Ligand Binding Site [chemical binding]; other site 390235004236 Molecular Tunnel; other site 390235004237 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 390235004238 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 390235004239 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 390235004240 active site 390235004241 DNA binding site [nucleotide binding] 390235004242 Int/Topo IB signature motif; other site 390235004243 Global regulator protein family; Region: CsrA; pfam02599 390235004244 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 390235004245 DNA binding residues [nucleotide binding] 390235004246 dimerization interface [polypeptide binding]; other site 390235004247 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 390235004248 non-specific DNA binding site [nucleotide binding]; other site 390235004249 Predicted transcriptional regulator [Transcription]; Region: COG2932 390235004250 salt bridge; other site 390235004251 sequence-specific DNA binding site [nucleotide binding]; other site 390235004252 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 390235004253 Catalytic site [active] 390235004254 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 390235004255 Prophage antirepressor [Transcription]; Region: COG3617 390235004256 BRO family, N-terminal domain; Region: Bro-N; pfam02498 390235004257 Helix-turn-helix domain; Region: HTH_36; pfam13730 390235004258 hypothetical protein; Validated; Region: PRK08116 390235004259 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 390235004260 Walker A motif; other site 390235004261 ATP binding site [chemical binding]; other site 390235004262 Walker B motif; other site 390235004263 arginine finger; other site 390235004264 replicative DNA helicase; Region: DnaB; TIGR00665 390235004265 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 390235004266 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 390235004267 Walker A motif; other site 390235004268 ATP binding site [chemical binding]; other site 390235004269 Walker B motif; other site 390235004270 DNA binding loops [nucleotide binding] 390235004271 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 390235004272 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 390235004273 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 390235004274 active site 390235004275 Phage terminase, small subunit; Region: Terminase_4; cl01525 390235004276 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 390235004277 Phage portal protein; Region: Phage_portal; pfam04860 390235004278 Phage-related protein [Function unknown]; Region: COG4695 390235004279 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 390235004280 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 390235004281 Phage capsid family; Region: Phage_capsid; pfam05065 390235004282 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 390235004283 oligomerization interface [polypeptide binding]; other site 390235004284 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 390235004285 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 390235004286 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 390235004287 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 390235004288 Short C-terminal domain; Region: SHOCT; pfam09851 390235004289 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 390235004290 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 390235004291 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 390235004292 Putative phage tail protein; Region: Phage-tail_3; pfam13550 390235004293 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 390235004294 virion protein; Provisional; Region: V; PHA02564 390235004295 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 390235004296 Protein of unknown function (DUF2441); Region: DUF2441; pfam10386 390235004297 Uncharacterized conserved protein [Function unknown]; Region: COG4121 390235004298 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 390235004299 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 390235004300 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 390235004301 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 390235004302 EamA-like transporter family; Region: EamA; pfam00892 390235004303 fumarate hydratase; Provisional; Region: PRK12425 390235004304 Class II fumarases; Region: Fumarase_classII; cd01362 390235004305 active site 390235004306 tetramer interface [polypeptide binding]; other site 390235004307 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 390235004308 BolA-like protein; Region: BolA; cl00386 390235004309 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 390235004310 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 390235004311 active site residue [active] 390235004312 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 390235004313 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 390235004314 catalytic residues [active] 390235004315 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 390235004316 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235004317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235004318 Walker A/P-loop; other site 390235004319 ATP binding site [chemical binding]; other site 390235004320 Q-loop/lid; other site 390235004321 ABC transporter signature motif; other site 390235004322 Walker B; other site 390235004323 D-loop; other site 390235004324 H-loop/switch region; other site 390235004325 PAS fold; Region: PAS; pfam00989 390235004326 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 390235004327 putative active site [active] 390235004328 heme pocket [chemical binding]; other site 390235004329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235004330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235004331 metal binding site [ion binding]; metal-binding site 390235004332 active site 390235004333 I-site; other site 390235004334 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 390235004335 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 390235004336 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 390235004337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235004338 NAD(P) binding site [chemical binding]; other site 390235004339 active site 390235004340 phosphoglycolate phosphatase; Provisional; Region: PRK13222 390235004341 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 390235004342 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 390235004343 motif II; other site 390235004344 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 390235004345 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 390235004346 S-adenosylmethionine binding site [chemical binding]; other site 390235004347 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 390235004348 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 390235004349 DNA gyrase subunit A; Validated; Region: PRK05560 390235004350 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 390235004351 CAP-like domain; other site 390235004352 active site 390235004353 primary dimer interface [polypeptide binding]; other site 390235004354 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004355 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004356 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004357 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004358 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004359 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 390235004360 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 390235004361 homodimer interface [polypeptide binding]; other site 390235004362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004363 substrate-cofactor binding pocket; other site 390235004364 catalytic residue [active] 390235004365 Chorismate mutase type II; Region: CM_2; cl00693 390235004366 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 390235004367 Prephenate dehydratase; Region: PDT; pfam00800 390235004368 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 390235004369 putative L-Phe binding site [chemical binding]; other site 390235004370 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 390235004371 prephenate dehydrogenase; Validated; Region: PRK08507 390235004372 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 390235004373 hinge; other site 390235004374 active site 390235004375 cytidylate kinase; Provisional; Region: cmk; PRK00023 390235004376 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 390235004377 CMP-binding site; other site 390235004378 The sites determining sugar specificity; other site 390235004379 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 390235004380 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 390235004381 RNA binding site [nucleotide binding]; other site 390235004382 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 390235004383 RNA binding site [nucleotide binding]; other site 390235004384 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 390235004385 RNA binding site [nucleotide binding]; other site 390235004386 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 390235004387 RNA binding site [nucleotide binding]; other site 390235004388 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 390235004389 RNA binding site [nucleotide binding]; other site 390235004390 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 390235004391 RNA binding site [nucleotide binding]; other site 390235004392 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 390235004393 IHF dimer interface [polypeptide binding]; other site 390235004394 IHF - DNA interface [nucleotide binding]; other site 390235004395 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 390235004396 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 390235004397 Beta-Casp domain; Region: Beta-Casp; smart01027 390235004398 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 390235004399 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 390235004400 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 390235004401 Substrate binding site; other site 390235004402 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 390235004403 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 390235004404 phosphomannomutase CpsG; Provisional; Region: PRK15414 390235004405 active site 390235004406 substrate binding site [chemical binding]; other site 390235004407 metal binding site [ion binding]; metal-binding site 390235004408 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004409 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 390235004410 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 390235004411 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 390235004412 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 390235004413 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 390235004414 Walker A/P-loop; other site 390235004415 ATP binding site [chemical binding]; other site 390235004416 Q-loop/lid; other site 390235004417 ABC transporter signature motif; other site 390235004418 Walker B; other site 390235004419 D-loop; other site 390235004420 H-loop/switch region; other site 390235004421 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 390235004422 putative carbohydrate binding site [chemical binding]; other site 390235004423 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 390235004424 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235004425 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 390235004426 S-adenosylmethionine binding site [chemical binding]; other site 390235004427 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 390235004428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004429 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 390235004430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004431 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004432 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 390235004433 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235004434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235004435 NAD(P) binding site [chemical binding]; other site 390235004436 active site 390235004437 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 390235004438 KpsF/GutQ family protein; Region: kpsF; TIGR00393 390235004439 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 390235004440 putative active site [active] 390235004441 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 390235004442 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 390235004443 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 390235004444 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 390235004445 substrate binding site; other site 390235004446 tetramer interface; other site 390235004447 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 390235004448 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 390235004449 NADP binding site [chemical binding]; other site 390235004450 active site 390235004451 putative substrate binding site [chemical binding]; other site 390235004452 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 390235004453 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 390235004454 NAD binding site [chemical binding]; other site 390235004455 substrate binding site [chemical binding]; other site 390235004456 homodimer interface [polypeptide binding]; other site 390235004457 active site 390235004458 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 390235004459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004460 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 390235004461 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 390235004462 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235004463 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 390235004464 Probable Catalytic site; other site 390235004465 metal-binding site 390235004466 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 390235004467 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 390235004468 active site 390235004469 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 390235004470 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 390235004471 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 390235004472 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 390235004473 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 390235004474 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235004475 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 390235004476 Walker A/P-loop; other site 390235004477 ATP binding site [chemical binding]; other site 390235004478 Q-loop/lid; other site 390235004479 ABC transporter signature motif; other site 390235004480 Walker B; other site 390235004481 D-loop; other site 390235004482 H-loop/switch region; other site 390235004483 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 390235004484 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235004485 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235004486 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 390235004487 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 390235004488 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 390235004489 NADP-binding site; other site 390235004490 homotetramer interface [polypeptide binding]; other site 390235004491 substrate binding site [chemical binding]; other site 390235004492 homodimer interface [polypeptide binding]; other site 390235004493 active site 390235004494 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 390235004495 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 390235004496 NADP-binding site; other site 390235004497 homotetramer interface [polypeptide binding]; other site 390235004498 substrate binding site [chemical binding]; other site 390235004499 homodimer interface [polypeptide binding]; other site 390235004500 active site 390235004501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004502 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 390235004503 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235004504 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_4; cd03795 390235004505 putative ADP-binding pocket [chemical binding]; other site 390235004506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235004507 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235004508 NAD(P) binding site [chemical binding]; other site 390235004509 active site 390235004510 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 390235004511 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 390235004512 Mg++ binding site [ion binding]; other site 390235004513 putative catalytic motif [active] 390235004514 putative substrate binding site [chemical binding]; other site 390235004515 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 390235004516 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 390235004517 NAD(P) binding site [chemical binding]; other site 390235004518 homodimer interface [polypeptide binding]; other site 390235004519 substrate binding site [chemical binding]; other site 390235004520 active site 390235004521 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 390235004522 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 390235004523 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 390235004524 active site 390235004525 dimer interface [polypeptide binding]; other site 390235004526 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235004527 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 390235004528 active site 390235004529 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235004530 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 390235004531 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 390235004532 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 390235004533 active site 390235004534 ATP binding site [chemical binding]; other site 390235004535 hypothetical protein; Provisional; Region: PHA03010 390235004536 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 390235004537 Prostaglandin dehydrogenases; Region: PGDH; cd05288 390235004538 NAD(P) binding site [chemical binding]; other site 390235004539 substrate binding site [chemical binding]; other site 390235004540 dimer interface [polypeptide binding]; other site 390235004541 short chain dehydrogenase; Provisional; Region: PRK06172 390235004542 classical (c) SDRs; Region: SDR_c; cd05233 390235004543 NAD(P) binding site [chemical binding]; other site 390235004544 active site 390235004545 HAMP domain; Region: HAMP; pfam00672 390235004546 dimerization interface [polypeptide binding]; other site 390235004547 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235004548 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235004549 dimer interface [polypeptide binding]; other site 390235004550 putative CheW interface [polypeptide binding]; other site 390235004551 benzoate transporter; Region: benE; TIGR00843 390235004552 Benzoate membrane transport protein; Region: BenE; pfam03594 390235004553 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235004554 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 390235004555 putative C-terminal domain interface [polypeptide binding]; other site 390235004556 putative GSH binding site (G-site) [chemical binding]; other site 390235004557 putative dimer interface [polypeptide binding]; other site 390235004558 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 390235004559 N-terminal domain interface [polypeptide binding]; other site 390235004560 dimer interface [polypeptide binding]; other site 390235004561 substrate binding pocket (H-site) [chemical binding]; other site 390235004562 Glutaredoxin; Region: Glutaredoxin; pfam00462 390235004563 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 390235004564 GTP cyclohydrolase I; Provisional; Region: PLN03044 390235004565 active site 390235004566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 390235004567 Smr domain; Region: Smr; pfam01713 390235004568 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 390235004569 Isochorismatase family; Region: Isochorismatase; pfam00857 390235004570 catalytic triad [active] 390235004571 conserved cis-peptide bond; other site 390235004572 HemK family putative methylases; Region: hemK_fam; TIGR00536 390235004573 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 390235004574 S-adenosylmethionine binding site [chemical binding]; other site 390235004575 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235004576 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 390235004577 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 390235004578 Tetramer interface [polypeptide binding]; other site 390235004579 active site 390235004580 FMN-binding site [chemical binding]; other site 390235004581 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 390235004582 putative substrate translocation pore; other site 390235004583 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 390235004584 Cupin domain; Region: Cupin_2; cl17218 390235004585 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 390235004586 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 390235004587 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 390235004588 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 390235004589 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 390235004590 ZIP Zinc transporter; Region: Zip; pfam02535 390235004591 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 390235004592 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 390235004593 Sulfatase; Region: Sulfatase; pfam00884 390235004594 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 390235004595 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235004596 Cytochrome c; Region: Cytochrom_C; pfam00034 390235004597 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 390235004598 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 390235004599 catalytic triad [active] 390235004600 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 390235004601 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 390235004602 oligomer interface [polypeptide binding]; other site 390235004603 metal binding site [ion binding]; metal-binding site 390235004604 metal binding site [ion binding]; metal-binding site 390235004605 putative Cl binding site [ion binding]; other site 390235004606 basic sphincter; other site 390235004607 hydrophobic gate; other site 390235004608 periplasmic entrance; other site 390235004609 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 390235004610 putative acyl-acceptor binding pocket; other site 390235004611 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 390235004612 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 390235004613 substrate binding site [chemical binding]; other site 390235004614 oxyanion hole (OAH) forming residues; other site 390235004615 trimer interface [polypeptide binding]; other site 390235004616 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 390235004617 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 390235004618 NAD binding site [chemical binding]; other site 390235004619 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 390235004620 outer membrane porin, OprD family; Region: OprD; pfam03573 390235004621 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 390235004622 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235004623 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 390235004624 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 390235004625 active site 390235004626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235004627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004628 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 390235004629 putative dimerization interface [polypeptide binding]; other site 390235004630 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235004631 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 390235004632 N-terminal plug; other site 390235004633 ligand-binding site [chemical binding]; other site 390235004634 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235004635 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 390235004636 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 390235004637 classical (c) SDRs; Region: SDR_c; cd05233 390235004638 NAD(P) binding site [chemical binding]; other site 390235004639 active site 390235004640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235004641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004642 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 390235004643 putative effector binding pocket; other site 390235004644 dimerization interface [polypeptide binding]; other site 390235004645 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 390235004646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 390235004647 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 390235004648 elongation factor P; Validated; Region: PRK00529 390235004649 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 390235004650 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 390235004651 RNA binding site [nucleotide binding]; other site 390235004652 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 390235004653 RNA binding site [nucleotide binding]; other site 390235004654 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 390235004655 Transcriptional regulators [Transcription]; Region: MarR; COG1846 390235004656 MarR family; Region: MarR; pfam01047 390235004657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235004658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004659 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 390235004660 putative effector binding pocket; other site 390235004661 dimerization interface [polypeptide binding]; other site 390235004662 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235004663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235004664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004665 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 390235004666 dimerization interface [polypeptide binding]; other site 390235004667 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 390235004668 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 390235004669 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 390235004670 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 390235004671 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 390235004672 ATP binding site [chemical binding]; other site 390235004673 Mg++ binding site [ion binding]; other site 390235004674 motif III; other site 390235004675 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 390235004676 nucleotide binding region [chemical binding]; other site 390235004677 ATP-binding site [chemical binding]; other site 390235004678 DbpA RNA binding domain; Region: DbpA; pfam03880 390235004679 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 390235004680 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 390235004681 putative active site [active] 390235004682 metal binding site [ion binding]; metal-binding site 390235004683 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 390235004684 heat shock protein HtpX; Provisional; Region: PRK05457 390235004685 aminotransferase AlaT; Validated; Region: PRK09265 390235004686 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 390235004687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004688 homodimer interface [polypeptide binding]; other site 390235004689 catalytic residue [active] 390235004690 methionine sulfoxide reductase B; Provisional; Region: PRK00222 390235004691 SelR domain; Region: SelR; pfam01641 390235004692 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 390235004693 catalytic residues [active] 390235004694 dimer interface [polypeptide binding]; other site 390235004695 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 390235004696 dimer interface [polypeptide binding]; other site 390235004697 phosphorylation site [posttranslational modification] 390235004698 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 390235004699 ATP binding site [chemical binding]; other site 390235004700 Mg2+ binding site [ion binding]; other site 390235004701 G-X-G motif; other site 390235004702 Response regulator receiver domain; Region: Response_reg; pfam00072 390235004703 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 390235004704 active site 390235004705 phosphorylation site [posttranslational modification] 390235004706 intermolecular recognition site; other site 390235004707 dimerization interface [polypeptide binding]; other site 390235004708 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 390235004709 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 390235004710 Walker A motif; other site 390235004711 ATP binding site [chemical binding]; other site 390235004712 Walker B motif; other site 390235004713 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 390235004714 GAF domain; Region: GAF_2; pfam13185 390235004715 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 390235004716 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 390235004717 Autotransporter beta-domain; Region: Autotransporter; pfam03797 390235004718 RHS Repeat; Region: RHS_repeat; cl11982 390235004719 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235004720 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 390235004721 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 390235004722 PapC N-terminal domain; Region: PapC_N; pfam13954 390235004723 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 390235004724 PapC C-terminal domain; Region: PapC_C; pfam13953 390235004725 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 390235004726 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 390235004727 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 390235004728 Fimbrial protein; Region: Fimbrial; cl01416 390235004729 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 390235004730 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 390235004731 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 390235004732 active site 390235004733 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 390235004734 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235004735 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 390235004736 putative C-terminal domain interface [polypeptide binding]; other site 390235004737 putative GSH binding site (G-site) [chemical binding]; other site 390235004738 putative dimer interface [polypeptide binding]; other site 390235004739 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 390235004740 putative N-terminal domain interface [polypeptide binding]; other site 390235004741 putative dimer interface [polypeptide binding]; other site 390235004742 putative substrate binding pocket (H-site) [chemical binding]; other site 390235004743 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 390235004744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235004745 Walker A/P-loop; other site 390235004746 ATP binding site [chemical binding]; other site 390235004747 Q-loop/lid; other site 390235004748 ABC transporter signature motif; other site 390235004749 Walker B; other site 390235004750 D-loop; other site 390235004751 H-loop/switch region; other site 390235004752 inner membrane transport permease; Provisional; Region: PRK15066 390235004753 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 390235004754 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 390235004755 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 390235004756 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 390235004757 Competence protein; Region: Competence; pfam03772 390235004758 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 390235004759 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 390235004760 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 390235004761 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 390235004762 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 390235004763 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 390235004764 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 390235004765 Uncharacterized conserved protein [Function unknown]; Region: COG2835 390235004766 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 390235004767 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 390235004768 Ligand binding site; other site 390235004769 oligomer interface; other site 390235004770 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 390235004771 Low molecular weight phosphatase family; Region: LMWPc; cd00115 390235004772 active site 390235004773 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 390235004774 FAD binding domain; Region: FAD_binding_4; pfam01565 390235004775 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 390235004776 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 390235004777 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 390235004778 homodimer interface [polypeptide binding]; other site 390235004779 oligonucleotide binding site [chemical binding]; other site 390235004780 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 390235004781 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 390235004782 RNA binding surface [nucleotide binding]; other site 390235004783 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 390235004784 active site 390235004785 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 390235004786 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 390235004787 motif II; other site 390235004788 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 390235004789 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 390235004790 tandem repeat interface [polypeptide binding]; other site 390235004791 oligomer interface [polypeptide binding]; other site 390235004792 active site residues [active] 390235004793 Maf-like protein; Region: Maf; pfam02545 390235004794 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 390235004795 active site 390235004796 dimer interface [polypeptide binding]; other site 390235004797 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 390235004798 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 390235004799 putative phosphate acyltransferase; Provisional; Region: PRK05331 390235004800 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 390235004801 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 390235004802 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 390235004803 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 390235004804 NAD(P) binding site [chemical binding]; other site 390235004805 homotetramer interface [polypeptide binding]; other site 390235004806 homodimer interface [polypeptide binding]; other site 390235004807 active site 390235004808 acyl carrier protein; Provisional; Region: acpP; PRK00982 390235004809 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 390235004810 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 390235004811 dimer interface [polypeptide binding]; other site 390235004812 active site 390235004813 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 390235004814 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 390235004815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004816 catalytic residue [active] 390235004817 YceG-like family; Region: YceG; pfam02618 390235004818 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 390235004819 dimerization interface [polypeptide binding]; other site 390235004820 thymidylate kinase; Validated; Region: tmk; PRK00698 390235004821 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 390235004822 TMP-binding site; other site 390235004823 ATP-binding site [chemical binding]; other site 390235004824 DNA polymerase III subunit delta'; Validated; Region: PRK05707 390235004825 DNA polymerase III subunit delta'; Validated; Region: PRK08485 390235004826 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 390235004827 active site 390235004828 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 390235004829 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 390235004830 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235004831 catalytic residue [active] 390235004832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235004833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235004834 WHG domain; Region: WHG; pfam13305 390235004835 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 390235004836 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 390235004837 FeS/SAM binding site; other site 390235004838 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 390235004839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 390235004840 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 390235004841 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 390235004842 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 390235004843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004844 homodimer interface [polypeptide binding]; other site 390235004845 catalytic residue [active] 390235004846 excinuclease ABC subunit B; Provisional; Region: PRK05298 390235004847 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 390235004848 ATP binding site [chemical binding]; other site 390235004849 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 390235004850 nucleotide binding region [chemical binding]; other site 390235004851 ATP-binding site [chemical binding]; other site 390235004852 Ultra-violet resistance protein B; Region: UvrB; pfam12344 390235004853 UvrB/uvrC motif; Region: UVR; pfam02151 390235004854 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 390235004855 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 390235004856 active site 390235004857 HIGH motif; other site 390235004858 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 390235004859 active site 390235004860 KMSKS motif; other site 390235004861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235004862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235004863 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235004864 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 390235004865 active site 390235004866 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 390235004867 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 390235004868 FMN binding site [chemical binding]; other site 390235004869 active site 390235004870 catalytic residues [active] 390235004871 substrate binding site [chemical binding]; other site 390235004872 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 390235004873 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 390235004874 putative dimer interface [polypeptide binding]; other site 390235004875 PAS fold; Region: PAS_3; pfam08447 390235004876 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 390235004877 putative active site [active] 390235004878 heme pocket [chemical binding]; other site 390235004879 PAS domain S-box; Region: sensory_box; TIGR00229 390235004880 PAS domain; Region: PAS; smart00091 390235004881 putative active site [active] 390235004882 heme pocket [chemical binding]; other site 390235004883 PAS fold; Region: PAS_3; pfam08447 390235004884 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 390235004885 PAS domain S-box; Region: sensory_box; TIGR00229 390235004886 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 390235004887 putative active site [active] 390235004888 heme pocket [chemical binding]; other site 390235004889 PAS domain S-box; Region: sensory_box; TIGR00229 390235004890 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 390235004891 putative active site [active] 390235004892 heme pocket [chemical binding]; other site 390235004893 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235004894 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235004895 metal binding site [ion binding]; metal-binding site 390235004896 active site 390235004897 I-site; other site 390235004898 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 390235004899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235004900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235004901 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 390235004902 dimerization interface [polypeptide binding]; other site 390235004903 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 390235004904 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 390235004905 substrate binding site [chemical binding]; other site 390235004906 ligand binding site [chemical binding]; other site 390235004907 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 390235004908 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 390235004909 substrate binding site [chemical binding]; other site 390235004910 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 390235004911 S-adenosylmethionine binding site [chemical binding]; other site 390235004912 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 390235004913 tartrate dehydrogenase; Region: TTC; TIGR02089 390235004914 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 390235004915 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235004916 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 390235004917 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235004918 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235004919 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 390235004920 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 390235004921 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 390235004922 dimerization interface 3.5A [polypeptide binding]; other site 390235004923 active site 390235004924 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 390235004925 active site 390235004926 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 390235004927 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 390235004928 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 390235004929 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 390235004930 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 390235004931 Sporulation related domain; Region: SPOR; pfam05036 390235004932 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 390235004933 Colicin V production protein; Region: Colicin_V; cl00567 390235004934 amidophosphoribosyltransferase; Provisional; Region: PRK09246 390235004935 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 390235004936 active site 390235004937 tetramer interface [polypeptide binding]; other site 390235004938 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235004939 active site 390235004940 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 390235004941 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 390235004942 homodimer interface [polypeptide binding]; other site 390235004943 substrate-cofactor binding pocket; other site 390235004944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235004945 catalytic residue [active] 390235004946 oxidoreductase; Validated; Region: PRK05717 390235004947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235004948 NAD(P) binding site [chemical binding]; other site 390235004949 active site 390235004950 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 390235004951 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235004952 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235004953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235004954 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 390235004955 Predicted amidohydrolase [General function prediction only]; Region: COG0388 390235004956 active site 390235004957 catalytic triad [active] 390235004958 dimer interface [polypeptide binding]; other site 390235004959 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 390235004960 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 390235004961 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235004962 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 390235004963 active site 390235004964 FMN binding site [chemical binding]; other site 390235004965 2,4-decadienoyl-CoA binding site; other site 390235004966 catalytic residue [active] 390235004967 4Fe-4S cluster binding site [ion binding]; other site 390235004968 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 390235004969 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235004970 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 390235004971 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 390235004972 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 390235004973 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 390235004974 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 390235004975 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 390235004976 active site 390235004977 metal binding site [ion binding]; metal-binding site 390235004978 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 390235004979 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 390235004980 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 390235004981 aminopeptidase N; Provisional; Region: pepN; PRK14015 390235004982 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 390235004983 active site 390235004984 Zn binding site [ion binding]; other site 390235004985 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 390235004986 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 390235004987 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 390235004988 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 390235004989 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235004990 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 390235004991 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 390235004992 putative dimer interface [polypeptide binding]; other site 390235004993 putative N-terminal domain interface [polypeptide binding]; other site 390235004994 putative substrate binding pocket (H-site) [chemical binding]; other site 390235004995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235004996 AAA domain; Region: AAA_23; pfam13476 390235004997 Walker A/P-loop; other site 390235004998 ATP binding site [chemical binding]; other site 390235004999 Q-loop/lid; other site 390235005000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235005001 ABC transporter signature motif; other site 390235005002 Walker B; other site 390235005003 D-loop; other site 390235005004 H-loop/switch region; other site 390235005005 exonuclease subunit SbcD; Provisional; Region: PRK10966 390235005006 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 390235005007 active site 390235005008 metal binding site [ion binding]; metal-binding site 390235005009 DNA binding site [nucleotide binding] 390235005010 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 390235005011 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 390235005012 Oxygen tolerance; Region: BatD; pfam13584 390235005013 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 390235005014 von Willebrand factor type A domain; Region: VWA_2; pfam13519 390235005015 metal ion-dependent adhesion site (MIDAS); other site 390235005016 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 390235005017 TPR repeat; Region: TPR_11; pfam13414 390235005018 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 390235005019 metal ion-dependent adhesion site (MIDAS); other site 390235005020 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 390235005021 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 390235005022 Protein of unknown function DUF58; Region: DUF58; pfam01882 390235005023 MoxR-like ATPases [General function prediction only]; Region: COG0714 390235005024 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 390235005025 Walker A motif; other site 390235005026 ATP binding site [chemical binding]; other site 390235005027 Walker B motif; other site 390235005028 arginine finger; other site 390235005029 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 390235005030 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 390235005031 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235005032 putative substrate translocation pore; other site 390235005033 Predicted dehydrogenase [General function prediction only]; Region: COG0579 390235005034 hydroxyglutarate oxidase; Provisional; Region: PRK11728 390235005035 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235005036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235005037 DNA-binding site [nucleotide binding]; DNA binding site 390235005038 FCD domain; Region: FCD; pfam07729 390235005039 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 390235005040 PEP synthetase regulatory protein; Provisional; Region: PRK05339 390235005041 phosphoenolpyruvate synthase; Validated; Region: PRK06464 390235005042 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 390235005043 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 390235005044 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 390235005045 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235005046 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235005047 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 390235005048 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 390235005049 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 390235005050 Cl binding site [ion binding]; other site 390235005051 oligomer interface [polypeptide binding]; other site 390235005052 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 390235005053 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235005054 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 390235005055 DNA binding residues [nucleotide binding] 390235005056 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 390235005057 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235005058 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235005059 ligand binding site [chemical binding]; other site 390235005060 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 390235005061 active site 390235005062 SAM binding site [chemical binding]; other site 390235005063 homodimer interface [polypeptide binding]; other site 390235005064 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 390235005065 active site 390235005066 Catalytic domain of Protein Kinases; Region: PKc; cd00180 390235005067 active site 390235005068 ATP binding site [chemical binding]; other site 390235005069 substrate binding site [chemical binding]; other site 390235005070 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 390235005071 activation loop (A-loop); other site 390235005072 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 390235005073 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 390235005074 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 390235005075 putative substrate translocation pore; other site 390235005076 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 390235005077 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 390235005078 active site 390235005079 phosphorylation site [posttranslational modification] 390235005080 intermolecular recognition site; other site 390235005081 dimerization interface [polypeptide binding]; other site 390235005082 ANTAR domain; Region: ANTAR; pfam03861 390235005083 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 390235005084 NMT1-like family; Region: NMT1_2; pfam13379 390235005085 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 390235005086 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 390235005087 quinone interaction residues [chemical binding]; other site 390235005088 active site 390235005089 catalytic residues [active] 390235005090 FMN binding site [chemical binding]; other site 390235005091 substrate binding site [chemical binding]; other site 390235005092 Ribosome modulation factor; Region: RMF; pfam04957 390235005093 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 390235005094 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 390235005095 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 390235005096 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 390235005097 S-adenosylmethionine binding site [chemical binding]; other site 390235005098 CHASE domain; Region: CHASE; pfam03924 390235005099 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 390235005100 PAS domain; Region: PAS_9; pfam13426 390235005101 putative active site [active] 390235005102 heme pocket [chemical binding]; other site 390235005103 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 390235005104 putative active site [active] 390235005105 heme pocket [chemical binding]; other site 390235005106 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235005107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235005108 metal binding site [ion binding]; metal-binding site 390235005109 active site 390235005110 I-site; other site 390235005111 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 390235005112 hypothetical protein; Provisional; Region: PRK11702 390235005113 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235005114 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 390235005115 substrate binding pocket [chemical binding]; other site 390235005116 membrane-bound complex binding site; other site 390235005117 hinge residues; other site 390235005118 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 390235005119 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235005120 substrate binding pocket [chemical binding]; other site 390235005121 membrane-bound complex binding site; other site 390235005122 hinge residues; other site 390235005123 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 390235005124 putative active site [active] 390235005125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235005126 heme pocket [chemical binding]; other site 390235005127 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 390235005128 dimer interface [polypeptide binding]; other site 390235005129 phosphorylation site [posttranslational modification] 390235005130 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 390235005131 ATP binding site [chemical binding]; other site 390235005132 Mg2+ binding site [ion binding]; other site 390235005133 G-X-G motif; other site 390235005134 Response regulator receiver domain; Region: Response_reg; pfam00072 390235005135 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 390235005136 active site 390235005137 phosphorylation site [posttranslational modification] 390235005138 intermolecular recognition site; other site 390235005139 dimerization interface [polypeptide binding]; other site 390235005140 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235005141 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 390235005142 active site 390235005143 phosphorylation site [posttranslational modification] 390235005144 intermolecular recognition site; other site 390235005145 dimerization interface [polypeptide binding]; other site 390235005146 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 390235005147 DNA binding residues [nucleotide binding] 390235005148 dimerization interface [polypeptide binding]; other site 390235005149 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 390235005150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 390235005151 Zn2+ binding site [ion binding]; other site 390235005152 Mg2+ binding site [ion binding]; other site 390235005153 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 390235005154 Predicted membrane protein [Function unknown]; Region: COG5393 390235005155 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 390235005156 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 390235005157 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 390235005158 Peptidase M15; Region: Peptidase_M15_3; pfam08291 390235005159 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 390235005160 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 390235005161 probable active site [active] 390235005162 PAS domain; Region: PAS_9; pfam13426 390235005163 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 390235005164 putative active site [active] 390235005165 heme pocket [chemical binding]; other site 390235005166 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235005167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235005168 dimer interface [polypeptide binding]; other site 390235005169 putative CheW interface [polypeptide binding]; other site 390235005170 aconitate hydratase; Validated; Region: PRK09277 390235005171 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 390235005172 substrate binding site [chemical binding]; other site 390235005173 ligand binding site [chemical binding]; other site 390235005174 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 390235005175 substrate binding site [chemical binding]; other site 390235005176 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 390235005177 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 390235005178 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 390235005179 CPxP motif; other site 390235005180 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 390235005181 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 390235005182 ligand binding site [chemical binding]; other site 390235005183 NAD binding site [chemical binding]; other site 390235005184 catalytic site [active] 390235005185 homodimer interface [polypeptide binding]; other site 390235005186 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 390235005187 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235005188 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235005189 Walker A/P-loop; other site 390235005190 ATP binding site [chemical binding]; other site 390235005191 Q-loop/lid; other site 390235005192 ABC transporter signature motif; other site 390235005193 Walker B; other site 390235005194 D-loop; other site 390235005195 H-loop/switch region; other site 390235005196 HAMP domain; Region: HAMP; pfam00672 390235005197 dimerization interface [polypeptide binding]; other site 390235005198 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235005199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235005200 dimer interface [polypeptide binding]; other site 390235005201 putative CheW interface [polypeptide binding]; other site 390235005202 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 390235005203 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 390235005204 MPT binding site; other site 390235005205 trimer interface [polypeptide binding]; other site 390235005206 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 390235005207 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 390235005208 dimer interface [polypeptide binding]; other site 390235005209 putative functional site; other site 390235005210 putative MPT binding site; other site 390235005211 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235005212 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 390235005213 lipid kinase; Reviewed; Region: PRK13054 390235005214 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 390235005215 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235005216 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 390235005217 active site 390235005218 phosphorylation site [posttranslational modification] 390235005219 intermolecular recognition site; other site 390235005220 dimerization interface [polypeptide binding]; other site 390235005221 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 390235005222 DNA binding residues [nucleotide binding] 390235005223 dimerization interface [polypeptide binding]; other site 390235005224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 390235005225 Histidine kinase; Region: HisKA_3; pfam07730 390235005226 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 390235005227 ATP binding site [chemical binding]; other site 390235005228 Mg2+ binding site [ion binding]; other site 390235005229 G-X-G motif; other site 390235005230 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235005231 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235005232 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 390235005233 active site 390235005234 phosphorylation site [posttranslational modification] 390235005235 intermolecular recognition site; other site 390235005236 dimerization interface [polypeptide binding]; other site 390235005237 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 390235005238 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 390235005239 MOSC domain; Region: MOSC; pfam03473 390235005240 lytic murein transglycosylase; Provisional; Region: PRK11619 390235005241 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 390235005242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235005243 catalytic residue [active] 390235005244 ABC transporter ATPase component; Reviewed; Region: PRK11147 390235005245 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235005246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235005247 ABC transporter; Region: ABC_tran_2; pfam12848 390235005248 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235005249 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 390235005250 Ligand Binding Site [chemical binding]; other site 390235005251 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 390235005252 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 390235005253 substrate binding site [chemical binding]; other site 390235005254 oxyanion hole (OAH) forming residues; other site 390235005255 trimer interface [polypeptide binding]; other site 390235005256 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235005257 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235005258 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 390235005259 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 390235005260 dimer interface [polypeptide binding]; other site 390235005261 active site 390235005262 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 390235005263 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 390235005264 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 390235005265 active site 390235005266 interdomain interaction site; other site 390235005267 putative metal-binding site [ion binding]; other site 390235005268 nucleotide binding site [chemical binding]; other site 390235005269 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 390235005270 domain I; other site 390235005271 DNA binding groove [nucleotide binding] 390235005272 phosphate binding site [ion binding]; other site 390235005273 domain II; other site 390235005274 domain III; other site 390235005275 nucleotide binding site [chemical binding]; other site 390235005276 catalytic site [active] 390235005277 domain IV; other site 390235005278 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 390235005279 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 390235005280 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 390235005281 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 390235005282 Cell division inhibitor SulA; Region: SulA; cl01880 390235005283 LexA repressor; Validated; Region: PRK00215 390235005284 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 390235005285 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 390235005286 Catalytic site [active] 390235005287 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235005288 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235005289 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 390235005290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 390235005291 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 390235005292 beta-hexosaminidase; Provisional; Region: PRK05337 390235005293 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 390235005294 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 390235005295 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 390235005296 ATP binding site [chemical binding]; other site 390235005297 putative Mg++ binding site [ion binding]; other site 390235005298 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 390235005299 nucleotide binding region [chemical binding]; other site 390235005300 ATP-binding site [chemical binding]; other site 390235005301 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 390235005302 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 390235005303 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 390235005304 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 390235005305 ATP binding site [chemical binding]; other site 390235005306 putative Mg++ binding site [ion binding]; other site 390235005307 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 390235005308 nucleotide binding region [chemical binding]; other site 390235005309 ATP-binding site [chemical binding]; other site 390235005310 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 390235005311 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 390235005312 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 390235005313 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 390235005314 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 390235005315 ApbE family; Region: ApbE; pfam02424 390235005316 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 390235005317 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235005318 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235005319 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 390235005320 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 390235005321 active site 390235005322 catalytic site [active] 390235005323 metal binding site [ion binding]; metal-binding site 390235005324 PilZ domain; Region: PilZ; pfam07238 390235005325 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 390235005326 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235005327 FtsX-like permease family; Region: FtsX; pfam02687 390235005328 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 390235005329 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235005330 Walker A/P-loop; other site 390235005331 ATP binding site [chemical binding]; other site 390235005332 Q-loop/lid; other site 390235005333 ABC transporter signature motif; other site 390235005334 Walker B; other site 390235005335 D-loop; other site 390235005336 H-loop/switch region; other site 390235005337 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 390235005338 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235005339 FtsX-like permease family; Region: FtsX; pfam02687 390235005340 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235005341 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 390235005342 dimerization interface [polypeptide binding]; other site 390235005343 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 390235005344 dimer interface [polypeptide binding]; other site 390235005345 phosphorylation site [posttranslational modification] 390235005346 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 390235005347 ATP binding site [chemical binding]; other site 390235005348 Mg2+ binding site [ion binding]; other site 390235005349 G-X-G motif; other site 390235005350 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235005351 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 390235005352 active site 390235005353 phosphorylation site [posttranslational modification] 390235005354 intermolecular recognition site; other site 390235005355 dimerization interface [polypeptide binding]; other site 390235005356 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 390235005357 DNA binding site [nucleotide binding] 390235005358 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 390235005359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 390235005360 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 390235005361 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 390235005362 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 390235005363 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 390235005364 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 390235005365 PilZ domain; Region: PilZ; pfam07238 390235005366 Response regulator receiver domain; Region: Response_reg; pfam00072 390235005367 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 390235005368 active site 390235005369 phosphorylation site [posttranslational modification] 390235005370 intermolecular recognition site; other site 390235005371 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 390235005372 dimerization interface [polypeptide binding]; other site 390235005373 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 390235005374 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 390235005375 anti sigma factor interaction site; other site 390235005376 regulatory phosphorylation site [posttranslational modification]; other site 390235005377 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 390235005378 metal binding site [ion binding]; metal-binding site 390235005379 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 390235005380 putative active site [active] 390235005381 putative metal binding site [ion binding]; other site 390235005382 transaldolase-like protein; Provisional; Region: PTZ00411 390235005383 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 390235005384 active site 390235005385 dimer interface [polypeptide binding]; other site 390235005386 catalytic residue [active] 390235005387 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 390235005388 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 390235005389 FMN binding site [chemical binding]; other site 390235005390 active site 390235005391 catalytic residues [active] 390235005392 substrate binding site [chemical binding]; other site 390235005393 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 390235005394 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 390235005395 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235005396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005397 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 390235005398 putative effector binding pocket; other site 390235005399 dimerization interface [polypeptide binding]; other site 390235005400 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 390235005401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235005402 NAD(P) binding site [chemical binding]; other site 390235005403 active site 390235005404 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 390235005405 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 390235005406 dimer interface [polypeptide binding]; other site 390235005407 active site 390235005408 metal binding site [ion binding]; metal-binding site 390235005409 Putative cyclase; Region: Cyclase; pfam04199 390235005410 Putative cyclase; Region: Cyclase; cl00814 390235005411 Transcriptional regulators [Transcription]; Region: PurR; COG1609 390235005412 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 390235005413 DNA binding site [nucleotide binding] 390235005414 domain linker motif; other site 390235005415 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 390235005416 putative ligand binding site [chemical binding]; other site 390235005417 putative dimerization interface [polypeptide binding]; other site 390235005418 SnoaL-like domain; Region: SnoaL_4; pfam13577 390235005419 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 390235005420 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 390235005421 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 390235005422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235005423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005424 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 390235005425 putative effector binding pocket; other site 390235005426 dimerization interface [polypeptide binding]; other site 390235005427 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 390235005428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235005429 putative substrate translocation pore; other site 390235005430 SCP-2 sterol transfer family; Region: SCP2; cl01225 390235005431 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235005432 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 390235005433 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235005434 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235005435 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 390235005436 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 390235005437 D-galactonate transporter; Region: 2A0114; TIGR00893 390235005438 putative substrate translocation pore; other site 390235005439 galactarate dehydratase; Region: galactar-dH20; TIGR03248 390235005440 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 390235005441 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 390235005442 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235005443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235005444 DNA-binding site [nucleotide binding]; DNA binding site 390235005445 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235005446 short chain dehydrogenase; Provisional; Region: PRK12829 390235005447 classical (c) SDRs; Region: SDR_c; cd05233 390235005448 NAD(P) binding site [chemical binding]; other site 390235005449 active site 390235005450 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 390235005451 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 390235005452 putative dimer interface [polypeptide binding]; other site 390235005453 [2Fe-2S] cluster binding site [ion binding]; other site 390235005454 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 390235005455 putative dimer interface [polypeptide binding]; other site 390235005456 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 390235005457 SLBB domain; Region: SLBB; pfam10531 390235005458 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 390235005459 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 390235005460 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 390235005461 catalytic loop [active] 390235005462 iron binding site [ion binding]; other site 390235005463 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 390235005464 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 390235005465 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 390235005466 [4Fe-4S] binding site [ion binding]; other site 390235005467 molybdopterin cofactor binding site; other site 390235005468 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 390235005469 molybdopterin cofactor binding site; other site 390235005470 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 390235005471 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 390235005472 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 390235005473 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 390235005474 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 390235005475 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 390235005476 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 390235005477 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 390235005478 Multicopper oxidase; Region: Cu-oxidase; pfam00394 390235005479 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 390235005480 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 390235005481 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 390235005482 arsenical pump membrane protein; Provisional; Region: PRK15445 390235005483 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 390235005484 transmembrane helices; other site 390235005485 outer membrane receptor FepA; Provisional; Region: PRK13524 390235005486 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 390235005487 N-terminal plug; other site 390235005488 ligand-binding site [chemical binding]; other site 390235005489 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235005490 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 390235005491 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235005492 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 390235005493 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 390235005494 heme binding pocket [chemical binding]; other site 390235005495 heme ligand [chemical binding]; other site 390235005496 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 390235005497 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235005498 Cache domain; Region: Cache_1; pfam02743 390235005499 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 390235005500 dimerization interface [polypeptide binding]; other site 390235005501 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235005502 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235005503 dimer interface [polypeptide binding]; other site 390235005504 putative CheW interface [polypeptide binding]; other site 390235005505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235005506 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005507 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 390235005508 dimerization interface [polypeptide binding]; other site 390235005509 Predicted membrane protein [Function unknown]; Region: COG4125 390235005510 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235005511 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235005512 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235005513 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235005514 DNA-binding site [nucleotide binding]; DNA binding site 390235005515 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235005516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235005517 DNA-binding site [nucleotide binding]; DNA binding site 390235005518 FCD domain; Region: FCD; pfam07729 390235005519 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 390235005520 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235005521 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 390235005522 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 390235005523 AsnC family; Region: AsnC_trans_reg; pfam01037 390235005524 ornithine cyclodeaminase; Validated; Region: PRK07589 390235005525 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 390235005526 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 390235005527 GAF domain; Region: GAF; pfam01590 390235005528 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 390235005529 Walker A motif; other site 390235005530 ATP binding site [chemical binding]; other site 390235005531 Walker B motif; other site 390235005532 arginine finger; other site 390235005533 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235005534 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 390235005535 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 390235005536 Walker A/P-loop; other site 390235005537 ATP binding site [chemical binding]; other site 390235005538 Q-loop/lid; other site 390235005539 ABC transporter signature motif; other site 390235005540 Walker B; other site 390235005541 D-loop; other site 390235005542 H-loop/switch region; other site 390235005543 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 390235005544 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 390235005545 Walker A/P-loop; other site 390235005546 ATP binding site [chemical binding]; other site 390235005547 Q-loop/lid; other site 390235005548 ABC transporter signature motif; other site 390235005549 Walker B; other site 390235005550 D-loop; other site 390235005551 H-loop/switch region; other site 390235005552 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 390235005553 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 390235005554 dimer interface [polypeptide binding]; other site 390235005555 conserved gate region; other site 390235005556 putative PBP binding loops; other site 390235005557 ABC-ATPase subunit interface; other site 390235005558 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 390235005559 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 390235005560 dimer interface [polypeptide binding]; other site 390235005561 conserved gate region; other site 390235005562 putative PBP binding loops; other site 390235005563 ABC-ATPase subunit interface; other site 390235005564 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 390235005565 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 390235005566 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 390235005567 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 390235005568 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 390235005569 homodimer interface [polypeptide binding]; other site 390235005570 NADP binding site [chemical binding]; other site 390235005571 substrate binding site [chemical binding]; other site 390235005572 trigger factor; Provisional; Region: tig; PRK01490 390235005573 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235005574 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 390235005575 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 390235005576 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 390235005577 oligomer interface [polypeptide binding]; other site 390235005578 active site residues [active] 390235005579 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 390235005580 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 390235005581 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 390235005582 Walker A motif; other site 390235005583 ATP binding site [chemical binding]; other site 390235005584 Walker B motif; other site 390235005585 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 390235005586 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 390235005587 Found in ATP-dependent protease La (LON); Region: LON; smart00464 390235005588 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 390235005589 Walker A motif; other site 390235005590 ATP binding site [chemical binding]; other site 390235005591 Walker B motif; other site 390235005592 arginine finger; other site 390235005593 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 390235005594 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 390235005595 IHF dimer interface [polypeptide binding]; other site 390235005596 IHF - DNA interface [nucleotide binding]; other site 390235005597 periplasmic folding chaperone; Provisional; Region: PRK10788 390235005598 SurA N-terminal domain; Region: SurA_N_3; pfam13624 390235005599 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 390235005600 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 390235005601 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 390235005602 active site 390235005603 nucleophile elbow; other site 390235005604 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 390235005605 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 390235005606 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 390235005607 active site 390235005608 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 390235005609 active site 2 [active] 390235005610 active site 1 [active] 390235005611 Terminase small subunit; Region: Terminase_2; cl01513 390235005612 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 390235005613 dimerization interface [polypeptide binding]; other site 390235005614 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235005615 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235005616 dimer interface [polypeptide binding]; other site 390235005617 putative CheW interface [polypeptide binding]; other site 390235005618 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 390235005619 active site 390235005620 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 390235005621 substrate binding pocket [chemical binding]; other site 390235005622 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235005623 membrane-bound complex binding site; other site 390235005624 hinge residues; other site 390235005625 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 390235005626 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235005627 catalytic residue [active] 390235005628 Predicted membrane protein [Function unknown]; Region: COG2259 390235005629 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 390235005630 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 390235005631 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 390235005632 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 390235005633 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 390235005634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235005635 Walker A/P-loop; other site 390235005636 ATP binding site [chemical binding]; other site 390235005637 Q-loop/lid; other site 390235005638 ABC transporter signature motif; other site 390235005639 Walker B; other site 390235005640 D-loop; other site 390235005641 H-loop/switch region; other site 390235005642 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 390235005643 active site 390235005644 catalytic triad [active] 390235005645 oxyanion hole [active] 390235005646 switch loop; other site 390235005647 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 390235005648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235005649 Coenzyme A binding pocket [chemical binding]; other site 390235005650 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 390235005651 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 390235005652 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 390235005653 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 390235005654 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 390235005655 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 390235005656 Ligand Binding Site [chemical binding]; other site 390235005657 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 390235005658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005659 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 390235005660 substrate binding site [chemical binding]; other site 390235005661 dimerization interface [polypeptide binding]; other site 390235005662 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 390235005663 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 390235005664 Active Sites [active] 390235005665 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 390235005666 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 390235005667 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 390235005668 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 390235005669 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 390235005670 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 390235005671 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 390235005672 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235005673 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235005674 DNA-binding site [nucleotide binding]; DNA binding site 390235005675 FCD domain; Region: FCD; pfam07729 390235005676 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 390235005677 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 390235005678 tetramer interface [polypeptide binding]; other site 390235005679 active site 390235005680 Mg2+/Mn2+ binding site [ion binding]; other site 390235005681 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 390235005682 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 390235005683 dimer interface [polypeptide binding]; other site 390235005684 active site 390235005685 citrylCoA binding site [chemical binding]; other site 390235005686 oxalacetate/citrate binding site [chemical binding]; other site 390235005687 coenzyme A binding site [chemical binding]; other site 390235005688 catalytic triad [active] 390235005689 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 390235005690 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 390235005691 substrate binding site [chemical binding]; other site 390235005692 ligand binding site [chemical binding]; other site 390235005693 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 390235005694 substrate binding site [chemical binding]; other site 390235005695 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 390235005696 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 390235005697 2-methylcitrate dehydratase; Region: prpD; TIGR02330 390235005698 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 390235005699 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 390235005700 substrate binding site [chemical binding]; other site 390235005701 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 390235005702 substrate binding site [chemical binding]; other site 390235005703 ligand binding site [chemical binding]; other site 390235005704 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 390235005705 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 390235005706 active site 390235005707 Predicted membrane protein [Function unknown]; Region: COG3212 390235005708 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 390235005709 Predicted membrane protein [Function unknown]; Region: COG3212 390235005710 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235005711 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 390235005712 active site 390235005713 phosphorylation site [posttranslational modification] 390235005714 intermolecular recognition site; other site 390235005715 dimerization interface [polypeptide binding]; other site 390235005716 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 390235005717 DNA binding site [nucleotide binding] 390235005718 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235005719 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 390235005720 ATP binding site [chemical binding]; other site 390235005721 Mg2+ binding site [ion binding]; other site 390235005722 G-X-G motif; other site 390235005723 HPP family; Region: HPP; pfam04982 390235005724 FOG: CBS domain [General function prediction only]; Region: COG0517 390235005725 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 390235005726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235005727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005728 LysR substrate binding domain; Region: LysR_substrate; pfam03466 390235005729 dimerization interface [polypeptide binding]; other site 390235005730 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 390235005731 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 390235005732 acyl-activating enzyme (AAE) consensus motif; other site 390235005733 putative AMP binding site [chemical binding]; other site 390235005734 putative active site [active] 390235005735 putative CoA binding site [chemical binding]; other site 390235005736 Predicted ATPase [General function prediction only]; Region: COG1485 390235005737 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235005738 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 390235005739 active site 390235005740 phosphorylation site [posttranslational modification] 390235005741 intermolecular recognition site; other site 390235005742 dimerization interface [polypeptide binding]; other site 390235005743 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 390235005744 PAS fold; Region: PAS_3; pfam08447 390235005745 putative active site [active] 390235005746 heme pocket [chemical binding]; other site 390235005747 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 390235005748 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 390235005749 putative active site [active] 390235005750 heme pocket [chemical binding]; other site 390235005751 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 390235005752 dimer interface [polypeptide binding]; other site 390235005753 phosphorylation site [posttranslational modification] 390235005754 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 390235005755 ATP binding site [chemical binding]; other site 390235005756 Mg2+ binding site [ion binding]; other site 390235005757 G-X-G motif; other site 390235005758 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 390235005759 active site 390235005760 phosphorylation site [posttranslational modification] 390235005761 intermolecular recognition site; other site 390235005762 dimerization interface [polypeptide binding]; other site 390235005763 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235005764 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 390235005765 active site 390235005766 phosphorylation site [posttranslational modification] 390235005767 intermolecular recognition site; other site 390235005768 dimerization interface [polypeptide binding]; other site 390235005769 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 390235005770 GAF domain; Region: GAF; pfam01590 390235005771 Phytochrome region; Region: PHY; pfam00360 390235005772 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 390235005773 dimer interface [polypeptide binding]; other site 390235005774 phosphorylation site [posttranslational modification] 390235005775 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 390235005776 ATP binding site [chemical binding]; other site 390235005777 Mg2+ binding site [ion binding]; other site 390235005778 G-X-G motif; other site 390235005779 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005780 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005781 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005782 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005783 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 390235005784 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 390235005785 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 390235005786 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 390235005787 PapC C-terminal domain; Region: PapC_C; pfam13953 390235005788 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005789 Spore Coat Protein U domain; Region: SCPU; pfam05229 390235005790 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 390235005791 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 390235005792 active site 390235005793 Zn binding site [ion binding]; other site 390235005794 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 390235005795 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 390235005796 putative substrate translocation pore; other site 390235005797 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 390235005798 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 390235005799 non-specific DNA binding site [nucleotide binding]; other site 390235005800 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 390235005801 salt bridge; other site 390235005802 sequence-specific DNA binding site [nucleotide binding]; other site 390235005803 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 390235005804 Catalytic site [active] 390235005805 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 390235005806 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 390235005807 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235005808 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 390235005809 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 390235005810 carboxyltransferase (CT) interaction site; other site 390235005811 biotinylation site [posttranslational modification]; other site 390235005812 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 390235005813 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 390235005814 substrate binding site [chemical binding]; other site 390235005815 oxyanion hole (OAH) forming residues; other site 390235005816 trimer interface [polypeptide binding]; other site 390235005817 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 390235005818 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 390235005819 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 390235005820 isovaleryl-CoA dehydrogenase; Region: PLN02519 390235005821 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 390235005822 substrate binding site [chemical binding]; other site 390235005823 FAD binding site [chemical binding]; other site 390235005824 catalytic base [active] 390235005825 AMP-binding domain protein; Validated; Region: PRK08315 390235005826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235005827 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 390235005828 acyl-activating enzyme (AAE) consensus motif; other site 390235005829 putative AMP binding site [chemical binding]; other site 390235005830 putative active site [active] 390235005831 putative CoA binding site [chemical binding]; other site 390235005832 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 390235005833 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 390235005834 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 390235005835 active site 390235005836 homodimer interface [polypeptide binding]; other site 390235005837 catalytic site [active] 390235005838 acceptor binding site [chemical binding]; other site 390235005839 trehalose synthase; Region: treS_nterm; TIGR02456 390235005840 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 390235005841 active site 390235005842 catalytic site [active] 390235005843 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 390235005844 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 390235005845 glycogen branching enzyme; Provisional; Region: PRK05402 390235005846 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 390235005847 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 390235005848 active site 390235005849 catalytic site [active] 390235005850 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 390235005851 Autotransporter beta-domain; Region: Autotransporter; smart00869 390235005852 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 390235005853 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 390235005854 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 390235005855 active site 390235005856 catalytic site [active] 390235005857 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 390235005858 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 390235005859 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 390235005860 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 390235005861 active site 390235005862 catalytic site [active] 390235005863 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 390235005864 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 390235005865 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 390235005866 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 390235005867 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 390235005868 catalytic site [active] 390235005869 active site 390235005870 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 390235005871 glycogen synthase; Provisional; Region: glgA; PRK00654 390235005872 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 390235005873 ADP-binding pocket [chemical binding]; other site 390235005874 homodimer interface [polypeptide binding]; other site 390235005875 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 390235005876 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 390235005877 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 390235005878 N-terminal plug; other site 390235005879 ligand-binding site [chemical binding]; other site 390235005880 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235005881 FecR protein; Region: FecR; pfam04773 390235005882 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 390235005883 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235005884 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 390235005885 DNA binding residues [nucleotide binding] 390235005886 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 390235005887 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235005888 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 390235005889 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 390235005890 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 390235005891 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 390235005892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235005893 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 390235005894 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 390235005895 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 390235005896 homodimer interface [polypeptide binding]; other site 390235005897 active site 390235005898 FMN binding site [chemical binding]; other site 390235005899 substrate binding site [chemical binding]; other site 390235005900 4Fe-4S binding domain; Region: Fer4_6; pfam12837 390235005901 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 390235005902 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 390235005903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235005904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235005905 phenylhydantoinase; Validated; Region: PRK08323 390235005906 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 390235005907 tetramer interface [polypeptide binding]; other site 390235005908 active site 390235005909 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 390235005910 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 390235005911 Na binding site [ion binding]; other site 390235005912 putative substrate binding site [chemical binding]; other site 390235005913 allantoate amidohydrolase; Reviewed; Region: PRK12893 390235005914 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 390235005915 active site 390235005916 metal binding site [ion binding]; metal-binding site 390235005917 dimer interface [polypeptide binding]; other site 390235005918 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 390235005919 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 390235005920 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 390235005921 enoyl-CoA hydratase; Provisional; Region: PRK06142 390235005922 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 390235005923 substrate binding site [chemical binding]; other site 390235005924 oxyanion hole (OAH) forming residues; other site 390235005925 trimer interface [polypeptide binding]; other site 390235005926 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 390235005927 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 390235005928 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 390235005929 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 390235005930 putative NADH binding site [chemical binding]; other site 390235005931 putative active site [active] 390235005932 nudix motif; other site 390235005933 putative metal binding site [ion binding]; other site 390235005934 hypothetical protein; Provisional; Region: PRK10621 390235005935 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235005936 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235005937 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235005938 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235005939 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235005940 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235005941 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 390235005942 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 390235005943 non-specific DNA binding site [nucleotide binding]; other site 390235005944 salt bridge; other site 390235005945 sequence-specific DNA binding site [nucleotide binding]; other site 390235005946 Cupin domain; Region: Cupin_2; pfam07883 390235005947 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235005948 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235005949 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235005950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235005951 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 390235005952 dimerization interface [polypeptide binding]; other site 390235005953 substrate binding pocket [chemical binding]; other site 390235005954 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 390235005955 agmatine deiminase; Region: agmatine_aguA; TIGR03380 390235005956 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 390235005957 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235005958 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 390235005959 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235005960 Predicted membrane protein [Function unknown]; Region: COG1238 390235005961 Predicted metal-binding protein [General function prediction only]; Region: COG3019 390235005962 putative protease; Provisional; Region: PRK15452 390235005963 Peptidase family U32; Region: Peptidase_U32; pfam01136 390235005964 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 390235005965 Domain of unknown function DUF20; Region: UPF0118; pfam01594 390235005966 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 390235005967 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 390235005968 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235005969 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 390235005970 DNA binding residues [nucleotide binding] 390235005971 dimerization interface [polypeptide binding]; other site 390235005972 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 390235005973 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 390235005974 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 390235005975 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 390235005976 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 390235005977 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 390235005978 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 390235005979 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 390235005980 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 390235005981 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 390235005982 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 390235005983 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 390235005984 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 390235005985 4Fe-4S binding domain; Region: Fer4; pfam00037 390235005986 4Fe-4S binding domain; Region: Fer4; pfam00037 390235005987 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 390235005988 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 390235005989 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 390235005990 catalytic loop [active] 390235005991 iron binding site [ion binding]; other site 390235005992 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 390235005993 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 390235005994 [4Fe-4S] binding site [ion binding]; other site 390235005995 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 390235005996 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 390235005997 SLBB domain; Region: SLBB; pfam10531 390235005998 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 390235005999 NADH dehydrogenase subunit E; Validated; Region: PRK07539 390235006000 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 390235006001 putative dimer interface [polypeptide binding]; other site 390235006002 [2Fe-2S] cluster binding site [ion binding]; other site 390235006003 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 390235006004 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 390235006005 NADH dehydrogenase subunit D; Validated; Region: PRK06075 390235006006 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 390235006007 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 390235006008 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235006009 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 390235006010 active site 390235006011 catalytic residues [active] 390235006012 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 390235006013 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 390235006014 Autotransporter beta-domain; Region: Autotransporter; smart00869 390235006015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 390235006016 SnoaL-like domain; Region: SnoaL_2; pfam12680 390235006017 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235006018 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 390235006019 putative substrate translocation pore; other site 390235006020 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 390235006021 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235006022 active site 390235006023 catalytic tetrad [active] 390235006024 Leucine rich repeat; Region: LRR_8; pfam13855 390235006025 Leucine rich repeat; Region: LRR_8; pfam13855 390235006026 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 390235006027 Leucine-rich repeats; other site 390235006028 Substrate binding site [chemical binding]; other site 390235006029 Leucine rich repeat; Region: LRR_8; pfam13855 390235006030 Leucine rich repeat; Region: LRR_8; pfam13855 390235006031 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 390235006032 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 390235006033 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 390235006034 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 390235006035 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 390235006036 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 390235006037 putative ligand binding site [chemical binding]; other site 390235006038 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 390235006039 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 390235006040 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 390235006041 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 390235006042 substrate binding pocket [chemical binding]; other site 390235006043 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 390235006044 B12 binding site [chemical binding]; other site 390235006045 cobalt ligand [ion binding]; other site 390235006046 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 390235006047 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 390235006048 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 390235006049 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 390235006050 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 390235006051 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 390235006052 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 390235006053 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 390235006054 Cu(I) binding site [ion binding]; other site 390235006055 Protein of unknown function (DUF461); Region: DUF461; pfam04314 390235006056 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235006057 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235006058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006060 Predicted membrane protein [Function unknown]; Region: COG4392 390235006061 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 390235006062 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235006063 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 390235006064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235006065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006066 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 390235006067 dimerization interface [polypeptide binding]; other site 390235006068 DNA polymerase II; Reviewed; Region: PRK05762 390235006069 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 390235006070 active site 390235006071 catalytic site [active] 390235006072 substrate binding site [chemical binding]; other site 390235006073 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 390235006074 active site 390235006075 metal-binding site 390235006076 Leucine rich repeat; Region: LRR_8; pfam13855 390235006077 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 390235006078 Substrate binding site [chemical binding]; other site 390235006079 Leucine rich repeat; Region: LRR_8; pfam13855 390235006080 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 390235006081 DoxX; Region: DoxX; pfam07681 390235006082 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 390235006083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235006084 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 390235006085 dimer interface [polypeptide binding]; other site 390235006086 phosphorylation site [posttranslational modification] 390235006087 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 390235006088 ATP binding site [chemical binding]; other site 390235006089 Mg2+ binding site [ion binding]; other site 390235006090 G-X-G motif; other site 390235006091 osmolarity response regulator; Provisional; Region: ompR; PRK09468 390235006092 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 390235006093 active site 390235006094 phosphorylation site [posttranslational modification] 390235006095 intermolecular recognition site; other site 390235006096 dimerization interface [polypeptide binding]; other site 390235006097 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 390235006098 DNA binding site [nucleotide binding] 390235006099 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235006100 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 390235006101 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 390235006102 catalytic residues [active] 390235006103 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 390235006104 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 390235006105 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 390235006106 shikimate binding site; other site 390235006107 NAD(P) binding site [chemical binding]; other site 390235006108 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 390235006109 Dehydroquinase class II; Region: DHquinase_II; pfam01220 390235006110 trimer interface [polypeptide binding]; other site 390235006111 active site 390235006112 dimer interface [polypeptide binding]; other site 390235006113 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 390235006114 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235006115 putative substrate translocation pore; other site 390235006116 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235006117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235006118 DNA-binding site [nucleotide binding]; DNA binding site 390235006119 FCD domain; Region: FCD; pfam07729 390235006120 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235006121 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 390235006122 substrate binding pocket [chemical binding]; other site 390235006123 membrane-bound complex binding site; other site 390235006124 hinge residues; other site 390235006125 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 390235006126 dimer interface [polypeptide binding]; other site 390235006127 conserved gate region; other site 390235006128 ABC-ATPase subunit interface; other site 390235006129 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 390235006130 dimer interface [polypeptide binding]; other site 390235006131 conserved gate region; other site 390235006132 putative PBP binding loops; other site 390235006133 ABC-ATPase subunit interface; other site 390235006134 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 390235006135 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235006136 Walker A/P-loop; other site 390235006137 ATP binding site [chemical binding]; other site 390235006138 Q-loop/lid; other site 390235006139 ABC transporter signature motif; other site 390235006140 Walker B; other site 390235006141 D-loop; other site 390235006142 H-loop/switch region; other site 390235006143 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 390235006144 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 390235006145 P-loop; other site 390235006146 Magnesium ion binding site [ion binding]; other site 390235006147 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 390235006148 Magnesium ion binding site [ion binding]; other site 390235006149 Cache domain; Region: Cache_1; pfam02743 390235006150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235006151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235006152 metal binding site [ion binding]; metal-binding site 390235006153 active site 390235006154 I-site; other site 390235006155 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 390235006156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235006157 Coenzyme A binding pocket [chemical binding]; other site 390235006158 outer membrane porin, OprD family; Region: OprD; pfam03573 390235006159 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 390235006160 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 390235006161 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 390235006162 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 390235006163 Walker A/P-loop; other site 390235006164 ATP binding site [chemical binding]; other site 390235006165 Q-loop/lid; other site 390235006166 ABC transporter signature motif; other site 390235006167 Walker B; other site 390235006168 D-loop; other site 390235006169 H-loop/switch region; other site 390235006170 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 390235006171 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 390235006172 dimer interface [polypeptide binding]; other site 390235006173 putative PBP binding regions; other site 390235006174 ABC-ATPase subunit interface; other site 390235006175 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 390235006176 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 390235006177 putative ligand binding residues [chemical binding]; other site 390235006178 Predicted membrane protein [Function unknown]; Region: COG3503 390235006179 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235006180 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 390235006181 N-terminal plug; other site 390235006182 ligand-binding site [chemical binding]; other site 390235006183 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235006184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235006185 Walker A/P-loop; other site 390235006186 ATP binding site [chemical binding]; other site 390235006187 Q-loop/lid; other site 390235006188 ABC transporter signature motif; other site 390235006189 Walker B; other site 390235006190 D-loop; other site 390235006191 H-loop/switch region; other site 390235006192 TOBE domain; Region: TOBE_2; pfam08402 390235006193 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235006194 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 390235006195 dimer interface [polypeptide binding]; other site 390235006196 conserved gate region; other site 390235006197 putative PBP binding loops; other site 390235006198 ABC-ATPase subunit interface; other site 390235006199 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 390235006200 dimer interface [polypeptide binding]; other site 390235006201 conserved gate region; other site 390235006202 putative PBP binding loops; other site 390235006203 ABC-ATPase subunit interface; other site 390235006204 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 390235006205 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 390235006206 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 390235006207 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 390235006208 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 390235006209 dimerization interface [polypeptide binding]; other site 390235006210 active site 390235006211 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 390235006212 short chain dehydrogenase; Provisional; Region: PRK06123 390235006213 classical (c) SDRs; Region: SDR_c; cd05233 390235006214 NAD(P) binding site [chemical binding]; other site 390235006215 active site 390235006216 PAS domain S-box; Region: sensory_box; TIGR00229 390235006217 PAS fold; Region: PAS_4; pfam08448 390235006218 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 390235006219 ATP binding site [chemical binding]; other site 390235006220 Mg2+ binding site [ion binding]; other site 390235006221 G-X-G motif; other site 390235006222 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235006223 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 390235006224 active site 390235006225 phosphorylation site [posttranslational modification] 390235006226 intermolecular recognition site; other site 390235006227 dimerization interface [polypeptide binding]; other site 390235006228 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 390235006229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235006230 DNA-binding site [nucleotide binding]; DNA binding site 390235006231 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 390235006232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235006233 homodimer interface [polypeptide binding]; other site 390235006234 catalytic residue [active] 390235006235 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 390235006236 MgtC family; Region: MgtC; pfam02308 390235006237 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 390235006238 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 390235006239 active site 390235006240 catalytic residues [active] 390235006241 metal binding site [ion binding]; metal-binding site 390235006242 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 390235006243 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 390235006244 DNA binding residues [nucleotide binding] 390235006245 putative dimer interface [polypeptide binding]; other site 390235006246 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235006247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006248 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 390235006249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235006250 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 390235006251 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39A; cd02549 390235006252 putative active site [active] 390235006253 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235006254 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235006255 Sporulation related domain; Region: SPOR; pfam05036 390235006256 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 390235006257 HD domain; Region: HD_4; pfam13328 390235006258 SnoaL-like domain; Region: SnoaL_3; pfam13474 390235006259 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 390235006260 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 390235006261 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 390235006262 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 390235006263 homodimer interface [polypeptide binding]; other site 390235006264 active site 390235006265 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 390235006266 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 390235006267 ligand binding site [chemical binding]; other site 390235006268 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 390235006269 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 390235006270 Walker A/P-loop; other site 390235006271 ATP binding site [chemical binding]; other site 390235006272 Q-loop/lid; other site 390235006273 ABC transporter signature motif; other site 390235006274 Walker B; other site 390235006275 D-loop; other site 390235006276 H-loop/switch region; other site 390235006277 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 390235006278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235006279 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 390235006280 TM-ABC transporter signature motif; other site 390235006281 Transcriptional regulators [Transcription]; Region: PurR; COG1609 390235006282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 390235006283 DNA binding site [nucleotide binding] 390235006284 domain linker motif; other site 390235006285 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 390235006286 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 390235006287 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 390235006288 substrate binding site [chemical binding]; other site 390235006289 dimer interface [polypeptide binding]; other site 390235006290 ATP binding site [chemical binding]; other site 390235006291 D-ribose pyranase; Provisional; Region: PRK11797 390235006292 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 390235006293 active site 390235006294 tetramer interface [polypeptide binding]; other site 390235006295 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 390235006296 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 390235006297 DNA-binding site [nucleotide binding]; DNA binding site 390235006298 RNA-binding motif; other site 390235006299 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 390235006300 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 390235006301 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 390235006302 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 390235006303 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 390235006304 active site 390235006305 dimer interface [polypeptide binding]; other site 390235006306 motif 1; other site 390235006307 motif 2; other site 390235006308 motif 3; other site 390235006309 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 390235006310 anticodon binding site; other site 390235006311 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 390235006312 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 390235006313 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 390235006314 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 390235006315 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 390235006316 23S rRNA binding site [nucleotide binding]; other site 390235006317 L21 binding site [polypeptide binding]; other site 390235006318 L13 binding site [polypeptide binding]; other site 390235006319 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 390235006320 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 390235006321 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 390235006322 dimer interface [polypeptide binding]; other site 390235006323 motif 1; other site 390235006324 active site 390235006325 motif 2; other site 390235006326 motif 3; other site 390235006327 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 390235006328 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 390235006329 putative tRNA-binding site [nucleotide binding]; other site 390235006330 B3/4 domain; Region: B3_4; pfam03483 390235006331 tRNA synthetase B5 domain; Region: B5; smart00874 390235006332 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 390235006333 dimer interface [polypeptide binding]; other site 390235006334 motif 1; other site 390235006335 motif 3; other site 390235006336 motif 2; other site 390235006337 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 390235006338 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 390235006339 IHF dimer interface [polypeptide binding]; other site 390235006340 IHF - DNA interface [nucleotide binding]; other site 390235006341 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 390235006342 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 390235006343 DNA binding residues [nucleotide binding] 390235006344 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 390235006345 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 390235006346 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 390235006347 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 390235006348 Bacterial transcriptional regulator; Region: IclR; pfam01614 390235006349 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 390235006350 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 390235006351 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 390235006352 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 390235006353 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 390235006354 putative active site [active] 390235006355 Fe(II) binding site [ion binding]; other site 390235006356 putative dimer interface [polypeptide binding]; other site 390235006357 putative tetramer interface [polypeptide binding]; other site 390235006358 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 390235006359 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235006360 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 390235006361 acetaldehyde dehydrogenase; Validated; Region: PRK08300 390235006362 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235006363 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 390235006364 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 390235006365 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 390235006366 active site 390235006367 catalytic residues [active] 390235006368 metal binding site [ion binding]; metal-binding site 390235006369 DmpG-like communication domain; Region: DmpG_comm; pfam07836 390235006370 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 390235006371 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 390235006372 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 390235006373 Sulfatase; Region: Sulfatase; pfam00884 390235006374 outer membrane porin, OprD family; Region: OprD; pfam03573 390235006375 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 390235006376 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 390235006377 heme-binding residues [chemical binding]; other site 390235006378 HEAT repeats; Region: HEAT_2; pfam13646 390235006379 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 390235006380 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 390235006381 binding surface 390235006382 TPR motif; other site 390235006383 Tetratricopeptide repeat; Region: TPR_16; pfam13432 390235006384 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 390235006385 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 390235006386 Helix-turn-helix domain; Region: HTH_38; pfam13936 390235006387 Integrase core domain; Region: rve; pfam00665 390235006388 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235006389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235006390 DNA-binding site [nucleotide binding]; DNA binding site 390235006391 FCD domain; Region: FCD; pfam07729 390235006392 dihydroxy-acid dehydratase; Validated; Region: PRK06131 390235006393 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235006394 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 390235006395 putative substrate translocation pore; other site 390235006396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 390235006397 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 390235006398 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 390235006399 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 390235006400 dimer interface [polypeptide binding]; other site 390235006401 NADP binding site [chemical binding]; other site 390235006402 catalytic residues [active] 390235006403 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235006404 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 390235006405 putative substrate translocation pore; other site 390235006406 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 390235006407 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 390235006408 dimerization interface [polypeptide binding]; other site 390235006409 ligand binding site [chemical binding]; other site 390235006410 NADP binding site [chemical binding]; other site 390235006411 catalytic site [active] 390235006412 Predicted ATPase [General function prediction only]; Region: COG4637 390235006413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235006414 Walker A/P-loop; other site 390235006415 ATP binding site [chemical binding]; other site 390235006416 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235006417 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 390235006418 outer membrane porin, OprD family; Region: OprD; pfam03573 390235006419 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235006420 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 390235006421 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 390235006422 active site 390235006423 catalytic residues [active] 390235006424 metal binding site [ion binding]; metal-binding site 390235006425 DmpG-like communication domain; Region: DmpG_comm; pfam07836 390235006426 acetaldehyde dehydrogenase; Validated; Region: PRK08300 390235006427 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235006428 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 390235006429 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 390235006430 homotrimer interaction site [polypeptide binding]; other site 390235006431 putative active site [active] 390235006432 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 390235006433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 390235006434 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 390235006435 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 390235006436 NAD binding site [chemical binding]; other site 390235006437 catalytic residues [active] 390235006438 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 390235006439 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 390235006440 active site 390235006441 metal binding site [ion binding]; metal-binding site 390235006442 The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol; Region: 2A5CPDO_B; cd07372 390235006443 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 390235006444 putative active site [active] 390235006445 putative metal binding site [ion binding]; other site 390235006446 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 390235006447 homotrimer interaction site [polypeptide binding]; other site 390235006448 putative active site [active] 390235006449 Transcriptional regulators [Transcription]; Region: MarR; COG1846 390235006450 MarR family; Region: MarR_2; pfam12802 390235006451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235006452 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235006453 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235006454 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 390235006455 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 390235006456 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235006457 putative NAD(P) binding site [chemical binding]; other site 390235006458 Protein of unknown function, DUF393; Region: DUF393; pfam04134 390235006459 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 390235006460 homodecamer interface [polypeptide binding]; other site 390235006461 GTP cyclohydrolase I; Provisional; Region: PLN03044 390235006462 active site 390235006463 putative catalytic site residues [active] 390235006464 zinc binding site [ion binding]; other site 390235006465 GTP-CH-I/GFRP interaction surface; other site 390235006466 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 390235006467 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 390235006468 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235006469 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235006470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006471 Fic family protein [Function unknown]; Region: COG3177 390235006472 Fic/DOC family; Region: Fic; pfam02661 390235006473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 390235006474 hypothetical protein; Provisional; Region: PRK09262 390235006475 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 390235006476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235006477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006478 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 390235006479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006480 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 390235006481 putative dimerization interface [polypeptide binding]; other site 390235006482 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 390235006483 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 390235006484 putative active site [active] 390235006485 Fe(II) binding site [ion binding]; other site 390235006486 putative dimer interface [polypeptide binding]; other site 390235006487 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 390235006488 putative dimer interface [polypeptide binding]; other site 390235006489 putative N- and C-terminal domain interface [polypeptide binding]; other site 390235006490 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 390235006491 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 390235006492 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 390235006493 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 390235006494 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 390235006495 tetramer interface [polypeptide binding]; other site 390235006496 heme binding pocket [chemical binding]; other site 390235006497 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 390235006498 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235006499 active site 390235006500 catalytic tetrad [active] 390235006501 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 390235006502 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 390235006503 putative substrate binding site [chemical binding]; other site 390235006504 putative ATP binding site [chemical binding]; other site 390235006505 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 390235006506 N- and C-terminal domain interface [polypeptide binding]; other site 390235006507 D-xylulose kinase; Region: XylB; TIGR01312 390235006508 active site 390235006509 MgATP binding site [chemical binding]; other site 390235006510 catalytic site [active] 390235006511 metal binding site [ion binding]; metal-binding site 390235006512 xylulose binding site [chemical binding]; other site 390235006513 putative homodimer interface [polypeptide binding]; other site 390235006514 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 390235006515 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 390235006516 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 390235006517 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 390235006518 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 390235006519 Walker A/P-loop; other site 390235006520 ATP binding site [chemical binding]; other site 390235006521 Q-loop/lid; other site 390235006522 ABC transporter signature motif; other site 390235006523 Walker B; other site 390235006524 D-loop; other site 390235006525 H-loop/switch region; other site 390235006526 TOBE domain; Region: TOBE_2; pfam08402 390235006527 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 390235006528 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 390235006529 dimer interface [polypeptide binding]; other site 390235006530 conserved gate region; other site 390235006531 ABC-ATPase subunit interface; other site 390235006532 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 390235006533 dimer interface [polypeptide binding]; other site 390235006534 conserved gate region; other site 390235006535 putative PBP binding loops; other site 390235006536 ABC-ATPase subunit interface; other site 390235006537 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 390235006538 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 390235006539 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235006540 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235006541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235006543 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235006544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235006545 DNA-binding site [nucleotide binding]; DNA binding site 390235006546 FCD domain; Region: FCD; pfam07729 390235006547 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235006548 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 390235006549 FMN-binding pocket [chemical binding]; other site 390235006550 flavin binding motif; other site 390235006551 phosphate binding motif [ion binding]; other site 390235006552 beta-alpha-beta structure motif; other site 390235006553 NAD binding pocket [chemical binding]; other site 390235006554 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 390235006555 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 390235006556 catalytic loop [active] 390235006557 iron binding site [ion binding]; other site 390235006558 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 390235006559 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 390235006560 iron-sulfur cluster [ion binding]; other site 390235006561 [2Fe-2S] cluster binding site [ion binding]; other site 390235006562 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 390235006563 alpha subunit interface [polypeptide binding]; other site 390235006564 active site 390235006565 substrate binding site [chemical binding]; other site 390235006566 Fe binding site [ion binding]; other site 390235006567 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235006568 MarR family; Region: MarR_2; pfam12802 390235006569 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 390235006570 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 390235006571 substrate binding site [chemical binding]; other site 390235006572 oxyanion hole (OAH) forming residues; other site 390235006573 trimer interface [polypeptide binding]; other site 390235006574 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235006575 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 390235006576 NAD(P) binding site [chemical binding]; other site 390235006577 catalytic residues [active] 390235006578 feruloyl-CoA synthase; Reviewed; Region: PRK08180 390235006579 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 390235006580 acyl-activating enzyme (AAE) consensus motif; other site 390235006581 putative AMP binding site [chemical binding]; other site 390235006582 putative active site [active] 390235006583 putative CoA binding site [chemical binding]; other site 390235006584 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 390235006585 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 390235006586 dimer interface [polypeptide binding]; other site 390235006587 active site 390235006588 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 390235006589 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235006590 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235006591 active site 390235006592 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235006593 Uncharacterized conserved protein [Function unknown]; Region: COG1262 390235006594 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 390235006595 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 390235006596 Sulfatase; Region: Sulfatase; pfam00884 390235006597 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 390235006598 benzoate transport; Region: 2A0115; TIGR00895 390235006599 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 390235006600 putative substrate translocation pore; other site 390235006601 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 390235006602 nucleoside/Zn binding site; other site 390235006603 dimer interface [polypeptide binding]; other site 390235006604 catalytic motif [active] 390235006605 xanthine permease; Region: pbuX; TIGR03173 390235006606 transcriptional regulator, ArgP family; Region: argP; TIGR03298 390235006607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006608 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 390235006609 dimerization interface [polypeptide binding]; other site 390235006610 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 390235006611 Flagellin N-methylase; Region: FliB; pfam03692 390235006612 Predicted transcriptional regulator [Transcription]; Region: COG2378 390235006613 WYL domain; Region: WYL; pfam13280 390235006614 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 390235006615 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 390235006616 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 390235006617 NAD binding site [chemical binding]; other site 390235006618 substrate binding site [chemical binding]; other site 390235006619 catalytic Zn binding site [ion binding]; other site 390235006620 tetramer interface [polypeptide binding]; other site 390235006621 structural Zn binding site [ion binding]; other site 390235006622 C factor cell-cell signaling protein; Provisional; Region: PRK09009 390235006623 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 390235006624 NADP binding site [chemical binding]; other site 390235006625 homodimer interface [polypeptide binding]; other site 390235006626 active site 390235006627 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 390235006628 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 390235006629 potential catalytic triad [active] 390235006630 conserved cys residue [active] 390235006631 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 390235006632 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235006633 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 390235006634 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 390235006635 active site 390235006636 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235006637 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235006638 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 390235006639 putative C-terminal domain interface [polypeptide binding]; other site 390235006640 putative GSH binding site (G-site) [chemical binding]; other site 390235006641 putative dimer interface [polypeptide binding]; other site 390235006642 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 390235006643 putative N-terminal domain interface [polypeptide binding]; other site 390235006644 putative dimer interface [polypeptide binding]; other site 390235006645 putative substrate binding pocket (H-site) [chemical binding]; other site 390235006646 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 390235006647 dimerization interface [polypeptide binding]; other site 390235006648 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235006649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235006650 dimer interface [polypeptide binding]; other site 390235006651 putative CheW interface [polypeptide binding]; other site 390235006652 Predicted permease [General function prediction only]; Region: COG2056 390235006653 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 390235006654 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235006655 FecR protein; Region: FecR; pfam04773 390235006656 MarR family; Region: MarR_2; cl17246 390235006657 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235006658 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 390235006659 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235006660 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235006661 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 390235006662 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 390235006663 putative substrate translocation pore; other site 390235006664 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 390235006665 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 390235006666 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235006667 LysR family transcriptional regulator; Provisional; Region: PRK14997 390235006668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006669 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 390235006670 putative effector binding pocket; other site 390235006671 dimerization interface [polypeptide binding]; other site 390235006672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 390235006673 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 390235006674 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 390235006675 Isochorismatase family; Region: Isochorismatase; pfam00857 390235006676 catalytic triad [active] 390235006677 dimer interface [polypeptide binding]; other site 390235006678 conserved cis-peptide bond; other site 390235006679 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 390235006680 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 390235006681 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 390235006682 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 390235006683 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 390235006684 ABC-ATPase subunit interface; other site 390235006685 dimer interface [polypeptide binding]; other site 390235006686 putative PBP binding regions; other site 390235006687 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 390235006688 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 390235006689 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 390235006690 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 390235006691 metal binding site [ion binding]; metal-binding site 390235006692 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235006693 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 390235006694 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 390235006695 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235006696 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 390235006697 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235006698 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 390235006699 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 390235006700 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 390235006701 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 390235006702 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 390235006703 shikimate binding site; other site 390235006704 NAD(P) binding site [chemical binding]; other site 390235006705 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 390235006706 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235006707 dimer interface [polypeptide binding]; other site 390235006708 active site 390235006709 metal binding site [ion binding]; metal-binding site 390235006710 glutathione binding site [chemical binding]; other site 390235006711 outer membrane porin, OprD family; Region: OprD; pfam03573 390235006712 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 390235006713 active site 390235006714 SAM binding site [chemical binding]; other site 390235006715 homodimer interface [polypeptide binding]; other site 390235006716 Response regulator receiver domain; Region: Response_reg; pfam00072 390235006717 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 390235006718 active site 390235006719 phosphorylation site [posttranslational modification] 390235006720 intermolecular recognition site; other site 390235006721 dimerization interface [polypeptide binding]; other site 390235006722 CHASE3 domain; Region: CHASE3; pfam05227 390235006723 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235006724 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 390235006725 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 390235006726 dimer interface [polypeptide binding]; other site 390235006727 phosphorylation site [posttranslational modification] 390235006728 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 390235006729 ATP binding site [chemical binding]; other site 390235006730 Mg2+ binding site [ion binding]; other site 390235006731 G-X-G motif; other site 390235006732 Response regulator receiver domain; Region: Response_reg; pfam00072 390235006733 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 390235006734 active site 390235006735 phosphorylation site [posttranslational modification] 390235006736 intermolecular recognition site; other site 390235006737 dimerization interface [polypeptide binding]; other site 390235006738 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235006739 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 390235006740 active site 390235006741 phosphorylation site [posttranslational modification] 390235006742 intermolecular recognition site; other site 390235006743 Response regulator receiver domain; Region: Response_reg; pfam00072 390235006744 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 390235006745 active site 390235006746 phosphorylation site [posttranslational modification] 390235006747 intermolecular recognition site; other site 390235006748 dimerization interface [polypeptide binding]; other site 390235006749 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 390235006750 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 390235006751 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 390235006752 CheB methylesterase; Region: CheB_methylest; pfam01339 390235006753 Response regulator receiver domain; Region: Response_reg; pfam00072 390235006754 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 390235006755 active site 390235006756 phosphorylation site [posttranslational modification] 390235006757 intermolecular recognition site; other site 390235006758 dimerization interface [polypeptide binding]; other site 390235006759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235006760 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 390235006761 dimer interface [polypeptide binding]; other site 390235006762 phosphorylation site [posttranslational modification] 390235006763 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 390235006764 ATP binding site [chemical binding]; other site 390235006765 Mg2+ binding site [ion binding]; other site 390235006766 G-X-G motif; other site 390235006767 Response regulator receiver domain; Region: Response_reg; pfam00072 390235006768 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 390235006769 active site 390235006770 phosphorylation site [posttranslational modification] 390235006771 intermolecular recognition site; other site 390235006772 dimerization interface [polypeptide binding]; other site 390235006773 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 390235006774 dimer interface [polypeptide binding]; other site 390235006775 active site 390235006776 Schiff base residues; other site 390235006777 proline/glycine betaine transporter; Provisional; Region: PRK10642 390235006778 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 390235006779 putative substrate translocation pore; other site 390235006780 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 390235006781 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235006782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006783 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 390235006784 dimerization interface [polypeptide binding]; other site 390235006785 substrate binding pocket [chemical binding]; other site 390235006786 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 390235006787 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 390235006788 putative NAD(P) binding site [chemical binding]; other site 390235006789 putative active site [active] 390235006790 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 390235006791 Lumazine binding domain; Region: Lum_binding; pfam00677 390235006792 Lumazine binding domain; Region: Lum_binding; pfam00677 390235006793 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 390235006794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235006795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235006796 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 390235006797 putative substrate binding pocket [chemical binding]; other site 390235006798 dimerization interface [polypeptide binding]; other site 390235006799 hypothetical protein; Provisional; Region: PRK12569 390235006800 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 390235006801 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 390235006802 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 390235006803 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 390235006804 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 390235006805 N-terminal plug; other site 390235006806 ligand-binding site [chemical binding]; other site 390235006807 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 390235006808 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 390235006809 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 390235006810 FeS/SAM binding site; other site 390235006811 Methyltransferase domain; Region: Methyltransf_31; pfam13847 390235006812 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 390235006813 S-adenosylmethionine binding site [chemical binding]; other site 390235006814 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 390235006815 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 390235006816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 390235006817 dimer interface [polypeptide binding]; other site 390235006818 active site 390235006819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235006820 catalytic residues [active] 390235006821 substrate binding site [chemical binding]; other site 390235006822 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 390235006823 active site 390235006824 metal binding site [ion binding]; metal-binding site 390235006825 homotetramer interface [polypeptide binding]; other site 390235006826 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 390235006827 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 390235006828 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235006829 catalytic residue [active] 390235006830 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235006831 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 390235006832 putative substrate translocation pore; other site 390235006833 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 390235006834 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 390235006835 ligand binding site [chemical binding]; other site 390235006836 flexible hinge region; other site 390235006837 non-specific DNA interactions [nucleotide binding]; other site 390235006838 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 390235006839 DNA binding site [nucleotide binding] 390235006840 sequence specific DNA binding site [nucleotide binding]; other site 390235006841 putative cAMP binding site [chemical binding]; other site 390235006842 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 390235006843 Putative glucoamylase; Region: Glycoamylase; pfam10091 390235006844 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 390235006845 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 390235006846 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 390235006847 Protein of unknown function, DUF608; Region: DUF608; pfam04685 390235006848 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 390235006849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235006850 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235006851 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 390235006852 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 390235006853 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235006854 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235006855 Cytochrome c; Region: Cytochrom_C; pfam00034 390235006856 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235006857 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235006858 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235006859 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 390235006860 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 390235006861 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 390235006862 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235006863 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 390235006864 MarR family; Region: MarR_2; cl17246 390235006865 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 390235006866 hypothetical protein; Provisional; Region: PRK06847 390235006867 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 390235006868 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235006869 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 390235006870 Isochorismatase family; Region: Isochorismatase; pfam00857 390235006871 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 390235006872 catalytic triad [active] 390235006873 substrate binding site [chemical binding]; other site 390235006874 domain interfaces; other site 390235006875 conserved cis-peptide bond; other site 390235006876 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235006877 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 390235006878 putative substrate translocation pore; other site 390235006879 outer membrane porin, OprD family; Region: OprD; pfam03573 390235006880 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 390235006881 Predicted oxidoreductase [General function prediction only]; Region: COG3573 390235006882 Transcriptional regulator [Transcription]; Region: IclR; COG1414 390235006883 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 390235006884 Bacterial transcriptional regulator; Region: IclR; pfam01614 390235006885 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 390235006886 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 390235006887 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 390235006888 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 390235006889 Predicted oxidoreductase [General function prediction only]; Region: COG3573 390235006890 NIPSNAP; Region: NIPSNAP; pfam07978 390235006891 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 390235006892 Predicted oxidoreductase [General function prediction only]; Region: COG3573 390235006893 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 390235006894 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 390235006895 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 390235006896 shikimate binding site; other site 390235006897 NAD(P) binding site [chemical binding]; other site 390235006898 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 390235006899 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 390235006900 Bacterial transcriptional regulator; Region: IclR; pfam01614 390235006901 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 390235006902 CsbD-like; Region: CsbD; cl17424 390235006903 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 390235006904 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 390235006905 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 390235006906 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 390235006907 putative active site [active] 390235006908 heme pocket [chemical binding]; other site 390235006909 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 390235006910 putative active site [active] 390235006911 heme pocket [chemical binding]; other site 390235006912 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235006913 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 390235006914 DNA binding residues [nucleotide binding] 390235006915 dimerization interface [polypeptide binding]; other site 390235006916 CsbD-like; Region: CsbD; pfam05532 390235006917 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 390235006918 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 390235006919 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235006920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235006921 DNA-binding site [nucleotide binding]; DNA binding site 390235006922 FCD domain; Region: FCD; pfam07729 390235006923 cytosine deaminase; Provisional; Region: PRK05985 390235006924 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 390235006925 active site 390235006926 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 390235006927 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 390235006928 TM-ABC transporter signature motif; other site 390235006929 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 390235006930 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 390235006931 Walker A/P-loop; other site 390235006932 ATP binding site [chemical binding]; other site 390235006933 Q-loop/lid; other site 390235006934 ABC transporter signature motif; other site 390235006935 Walker B; other site 390235006936 D-loop; other site 390235006937 H-loop/switch region; other site 390235006938 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 390235006939 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 390235006940 Walker A/P-loop; other site 390235006941 ATP binding site [chemical binding]; other site 390235006942 Q-loop/lid; other site 390235006943 ABC transporter signature motif; other site 390235006944 Walker B; other site 390235006945 D-loop; other site 390235006946 H-loop/switch region; other site 390235006947 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235006948 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 390235006949 TM-ABC transporter signature motif; other site 390235006950 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 390235006951 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 390235006952 putative ligand binding site [chemical binding]; other site 390235006953 SnoaL-like domain; Region: SnoaL_2; pfam12680 390235006954 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 390235006955 active site 390235006956 catalytic residues [active] 390235006957 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 390235006958 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235006959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235006960 Walker A/P-loop; other site 390235006961 ATP binding site [chemical binding]; other site 390235006962 Q-loop/lid; other site 390235006963 ABC transporter signature motif; other site 390235006964 Walker B; other site 390235006965 D-loop; other site 390235006966 H-loop/switch region; other site 390235006967 mechanosensitive channel MscS; Provisional; Region: PRK10334 390235006968 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235006969 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 390235006970 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 390235006971 motif II; other site 390235006972 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 390235006973 type II secretion system protein D; Region: type_II_gspD; TIGR02517 390235006974 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235006975 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235006976 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235006977 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235006978 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 390235006979 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 390235006980 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 390235006981 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 390235006982 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 390235006983 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 390235006984 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 390235006985 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 390235006986 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 390235006987 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 390235006988 type II secretion system protein F; Region: GspF; TIGR02120 390235006989 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235006990 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235006991 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 390235006992 type II secretion system protein E; Region: type_II_gspE; TIGR02533 390235006993 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 390235006994 Walker A motif; other site 390235006995 ATP binding site [chemical binding]; other site 390235006996 Walker B motif; other site 390235006997 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 390235006998 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 390235006999 PA14 domain; Region: PA14; pfam07691 390235007000 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 390235007001 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235007002 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 390235007003 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 390235007004 DoxX; Region: DoxX; pfam07681 390235007005 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 390235007006 hypothetical protein; Provisional; Region: PRK05409 390235007007 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 390235007008 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 390235007009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235007010 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 390235007011 DNA binding residues [nucleotide binding] 390235007012 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 390235007013 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235007014 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235007015 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 390235007016 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235007017 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235007018 beta-ketothiolase; Provisional; Region: PRK09051 390235007019 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 390235007020 dimer interface [polypeptide binding]; other site 390235007021 active site 390235007022 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235007023 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235007024 SurA N-terminal domain; Region: SurA_N; pfam09312 390235007025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007026 Domain of unknown function (DUF336); Region: DUF336; cl01249 390235007027 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 390235007028 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 390235007029 Cysteine-rich domain; Region: CCG; pfam02754 390235007030 Cysteine-rich domain; Region: CCG; pfam02754 390235007031 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 390235007032 FAD binding domain; Region: FAD_binding_4; pfam01565 390235007033 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 390235007034 FAD binding domain; Region: FAD_binding_4; pfam01565 390235007035 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 390235007036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235007037 DNA-binding site [nucleotide binding]; DNA binding site 390235007038 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235007039 glutamate carboxypeptidase; Reviewed; Region: PRK06133 390235007040 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 390235007041 metal binding site [ion binding]; metal-binding site 390235007042 dimer interface [polypeptide binding]; other site 390235007043 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 390235007044 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 390235007045 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 390235007046 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235007047 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 390235007048 putative C-terminal domain interface [polypeptide binding]; other site 390235007049 putative GSH binding site (G-site) [chemical binding]; other site 390235007050 putative dimer interface [polypeptide binding]; other site 390235007051 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 390235007052 N-terminal domain interface [polypeptide binding]; other site 390235007053 cytosine permease; Provisional; Region: codB; PRK11017 390235007054 Na binding site [ion binding]; other site 390235007055 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 390235007056 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 390235007057 cytosine deaminase; Provisional; Region: PRK09230 390235007058 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 390235007059 active site 390235007060 WYL domain; Region: WYL; pfam13280 390235007061 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 390235007062 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235007063 DNA-binding site [nucleotide binding]; DNA binding site 390235007064 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 390235007065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235007066 homodimer interface [polypeptide binding]; other site 390235007067 catalytic residue [active] 390235007068 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 390235007069 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 390235007070 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 390235007071 S-adenosylmethionine binding site [chemical binding]; other site 390235007072 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 390235007073 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 390235007074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007075 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 390235007076 dimerization interface [polypeptide binding]; other site 390235007077 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 390235007078 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 390235007079 putative substrate translocation pore; other site 390235007080 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235007081 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235007082 hypothetical protein; Provisional; Region: PRK12378 390235007083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007085 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 390235007086 substrate binding pocket [chemical binding]; other site 390235007087 dimerization interface [polypeptide binding]; other site 390235007088 tyrosine decarboxylase; Region: PLN02880 390235007089 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 390235007090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235007091 catalytic residue [active] 390235007092 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 390235007093 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235007094 putative substrate translocation pore; other site 390235007095 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 390235007096 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 390235007097 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 390235007098 dimer interface [polypeptide binding]; other site 390235007099 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 390235007100 active site 390235007101 Fe binding site [ion binding]; other site 390235007102 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235007103 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235007104 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235007105 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235007106 conserved cys residue [active] 390235007107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007108 Predicted acetyltransferase [General function prediction only]; Region: COG5628 390235007109 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 390235007110 PAS domain; Region: PAS_9; pfam13426 390235007111 putative active site [active] 390235007112 heme pocket [chemical binding]; other site 390235007113 PAS fold; Region: PAS_4; pfam08448 390235007114 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 390235007115 putative active site [active] 390235007116 heme pocket [chemical binding]; other site 390235007117 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235007118 metal binding site [ion binding]; metal-binding site 390235007119 active site 390235007120 I-site; other site 390235007121 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 390235007122 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 390235007123 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235007124 active site 390235007125 catalytic tetrad [active] 390235007126 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235007127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007129 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 390235007130 putative substrate binding pocket [chemical binding]; other site 390235007131 putative dimerization interface [polypeptide binding]; other site 390235007132 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 390235007133 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 390235007134 dimer interface [polypeptide binding]; other site 390235007135 active site 390235007136 heme binding site [chemical binding]; other site 390235007137 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 390235007138 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 390235007139 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 390235007140 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 390235007141 active site 390235007142 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 390235007143 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235007144 putative substrate translocation pore; other site 390235007145 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235007146 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235007147 conserved cys residue [active] 390235007148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007149 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 390235007150 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 390235007151 domain interface [polypeptide binding]; other site 390235007152 putative active site [active] 390235007153 catalytic site [active] 390235007154 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 390235007155 domain interface [polypeptide binding]; other site 390235007156 putative active site [active] 390235007157 catalytic site [active] 390235007158 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235007159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235007160 metal binding site [ion binding]; metal-binding site 390235007161 active site 390235007162 I-site; other site 390235007163 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 390235007164 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 390235007165 Predicted membrane protein [Function unknown]; Region: COG2855 390235007166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007167 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 390235007168 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 390235007169 putative dimerization interface [polypeptide binding]; other site 390235007170 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 390235007171 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 390235007172 active site 390235007173 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 390235007174 catalytic triad [active] 390235007175 metal binding site [ion binding]; metal-binding site 390235007176 conserved cis-peptide bond; other site 390235007177 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 390235007178 nudix motif; other site 390235007179 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 390235007180 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 390235007181 Na binding site [ion binding]; other site 390235007182 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235007183 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 390235007184 putative DNA binding site [nucleotide binding]; other site 390235007185 putative Zn2+ binding site [ion binding]; other site 390235007186 AsnC family; Region: AsnC_trans_reg; pfam01037 390235007187 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235007188 PAS fold; Region: PAS_4; pfam08448 390235007189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235007190 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 390235007191 dimer interface [polypeptide binding]; other site 390235007192 phosphorylation site [posttranslational modification] 390235007193 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 390235007194 ATP binding site [chemical binding]; other site 390235007195 G-X-G motif; other site 390235007196 Response regulator receiver domain; Region: Response_reg; pfam00072 390235007197 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 390235007198 active site 390235007199 phosphorylation site [posttranslational modification] 390235007200 intermolecular recognition site; other site 390235007201 dimerization interface [polypeptide binding]; other site 390235007202 PAS fold; Region: PAS_4; pfam08448 390235007203 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235007204 GAF domain; Region: GAF; pfam01590 390235007205 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 390235007206 dimer interface [polypeptide binding]; other site 390235007207 phosphorylation site [posttranslational modification] 390235007208 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 390235007209 ATP binding site [chemical binding]; other site 390235007210 Mg2+ binding site [ion binding]; other site 390235007211 G-X-G motif; other site 390235007212 Response regulator receiver domain; Region: Response_reg; pfam00072 390235007213 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 390235007214 active site 390235007215 phosphorylation site [posttranslational modification] 390235007216 intermolecular recognition site; other site 390235007217 dimerization interface [polypeptide binding]; other site 390235007218 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 390235007219 nudix motif; other site 390235007220 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235007221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235007222 DNA-binding site [nucleotide binding]; DNA binding site 390235007223 FCD domain; Region: FCD; pfam07729 390235007224 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 390235007225 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 390235007226 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235007227 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 390235007228 NAD(P) binding site [chemical binding]; other site 390235007229 catalytic residues [active] 390235007230 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 390235007231 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235007232 Amino acid synthesis; Region: AA_synth; pfam06684 390235007233 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 390235007234 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 390235007235 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 390235007236 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 390235007237 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 390235007238 Na binding site [ion binding]; other site 390235007239 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 390235007240 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235007241 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 390235007242 dimerization interface [polypeptide binding]; other site 390235007243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235007244 dimer interface [polypeptide binding]; other site 390235007245 putative CheW interface [polypeptide binding]; other site 390235007246 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 390235007247 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235007248 Protein of unknown function DUF116; Region: DUF116; cl00800 390235007249 Helix-turn-helix domain; Region: HTH_17; pfam12728 390235007250 AAA domain; Region: AAA_22; pfam13401 390235007251 Bacterial TniB protein; Region: TniB; pfam05621 390235007252 Integrase core domain; Region: rve; pfam00665 390235007253 Integrase core domain; Region: rve_3; cl15866 390235007254 Integrase core domain; Region: rve; pfam00665 390235007255 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 390235007256 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 390235007257 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 390235007258 DNA binding site [nucleotide binding] 390235007259 dimer interface [polypeptide binding]; other site 390235007260 active site 390235007261 Int/Topo IB signature motif; other site 390235007262 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 390235007263 Family description; Region: UvrD_C_2; pfam13538 390235007264 Uncharacterized conserved protein (DUF2290); Region: DUF2290; pfam10053 390235007265 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 390235007266 Methyltransferase domain; Region: Methyltransf_26; pfam13659 390235007267 AAA domain; Region: AAA_11; pfam13086 390235007268 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 390235007269 AAA domain; Region: AAA_30; pfam13604 390235007270 AAA domain; Region: AAA_12; pfam13087 390235007271 DEAD-like helicases superfamily; Region: DEXDc; smart00487 390235007272 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 390235007273 ATP binding site [chemical binding]; other site 390235007274 putative Mg++ binding site [ion binding]; other site 390235007275 helicase superfamily c-terminal domain; Region: HELICc; smart00490 390235007276 Nitrate and nitrite sensing; Region: NIT; pfam08376 390235007277 HAMP domain; Region: HAMP; pfam00672 390235007278 dimerization interface [polypeptide binding]; other site 390235007279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235007280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235007281 dimer interface [polypeptide binding]; other site 390235007282 putative CheW interface [polypeptide binding]; other site 390235007283 hypothetical protein; Provisional; Region: PRK07482 390235007284 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 390235007285 inhibitor-cofactor binding pocket; inhibition site 390235007286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235007287 catalytic residue [active] 390235007288 succinic semialdehyde dehydrogenase; Region: PLN02278 390235007289 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 390235007290 tetramerization interface [polypeptide binding]; other site 390235007291 NAD(P) binding site [chemical binding]; other site 390235007292 catalytic residues [active] 390235007293 Amino acid synthesis; Region: AA_synth; pfam06684 390235007294 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235007295 GAF domain; Region: GAF; cl17456 390235007296 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 390235007297 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 390235007298 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 390235007299 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235007300 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 390235007301 NAD(P) binding site [chemical binding]; other site 390235007302 catalytic residues [active] 390235007303 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 390235007304 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 390235007305 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235007306 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 390235007307 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 390235007308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235007309 Walker A/P-loop; other site 390235007310 ATP binding site [chemical binding]; other site 390235007311 Q-loop/lid; other site 390235007312 ABC transporter signature motif; other site 390235007313 Walker B; other site 390235007314 D-loop; other site 390235007315 H-loop/switch region; other site 390235007316 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 390235007317 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 390235007318 dimer interface [polypeptide binding]; other site 390235007319 conserved gate region; other site 390235007320 putative PBP binding loops; other site 390235007321 ABC-ATPase subunit interface; other site 390235007322 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 390235007323 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 390235007324 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 390235007325 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 390235007326 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235007327 active site 390235007328 catalytic tetrad [active] 390235007329 LrgA family; Region: LrgA; pfam03788 390235007330 LrgB-like family; Region: LrgB; cl00596 390235007331 Malic enzyme, N-terminal domain; Region: malic; pfam00390 390235007332 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 390235007333 putative NAD(P) binding site [chemical binding]; other site 390235007334 glycolate transporter; Provisional; Region: PRK09695 390235007335 L-lactate permease; Region: Lactate_perm; cl00701 390235007336 malate synthase G; Provisional; Region: PRK02999 390235007337 active site 390235007338 Domain of unknown function (DUF336); Region: DUF336; cl01249 390235007339 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 390235007340 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 390235007341 Cysteine-rich domain; Region: CCG; pfam02754 390235007342 Cysteine-rich domain; Region: CCG; pfam02754 390235007343 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 390235007344 FAD binding domain; Region: FAD_binding_4; pfam01565 390235007345 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 390235007346 FAD binding domain; Region: FAD_binding_4; pfam01565 390235007347 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 390235007348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235007349 DNA-binding site [nucleotide binding]; DNA binding site 390235007350 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235007351 pyruvate kinase; Provisional; Region: PRK06247 390235007352 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 390235007353 domain interfaces; other site 390235007354 active site 390235007355 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 390235007356 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 390235007357 MOFRL family; Region: MOFRL; pfam05161 390235007358 tartronate semialdehyde reductase; Provisional; Region: PRK15059 390235007359 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235007360 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 390235007361 glyoxylate carboligase; Provisional; Region: PRK11269 390235007362 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 390235007363 PYR/PP interface [polypeptide binding]; other site 390235007364 dimer interface [polypeptide binding]; other site 390235007365 TPP binding site [chemical binding]; other site 390235007366 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235007367 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 390235007368 TPP-binding site [chemical binding]; other site 390235007369 transcriptional activator TtdR; Provisional; Region: PRK09801 390235007370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007371 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 390235007372 putative effector binding pocket; other site 390235007373 dimerization interface [polypeptide binding]; other site 390235007374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007376 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 390235007377 putative effector binding pocket; other site 390235007378 dimerization interface [polypeptide binding]; other site 390235007379 Cupin domain; Region: Cupin_2; cl17218 390235007380 Cupin domain; Region: Cupin_2; pfam07883 390235007381 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 390235007382 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 390235007383 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 390235007384 putative active site [active] 390235007385 heme pocket [chemical binding]; other site 390235007386 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 390235007387 dimer interface [polypeptide binding]; other site 390235007388 phosphorylation site [posttranslational modification] 390235007389 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 390235007390 ATP binding site [chemical binding]; other site 390235007391 Mg2+ binding site [ion binding]; other site 390235007392 G-X-G motif; other site 390235007393 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 390235007394 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 390235007395 active site 390235007396 phosphorylation site [posttranslational modification] 390235007397 intermolecular recognition site; other site 390235007398 dimerization interface [polypeptide binding]; other site 390235007399 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 390235007400 DNA binding residues [nucleotide binding] 390235007401 dimerization interface [polypeptide binding]; other site 390235007402 Response regulator receiver domain; Region: Response_reg; pfam00072 390235007403 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 390235007404 active site 390235007405 phosphorylation site [posttranslational modification] 390235007406 intermolecular recognition site; other site 390235007407 dimerization interface [polypeptide binding]; other site 390235007408 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 390235007409 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 390235007410 dimerization interface [polypeptide binding]; other site 390235007411 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235007412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235007413 dimer interface [polypeptide binding]; other site 390235007414 putative CheW interface [polypeptide binding]; other site 390235007415 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 390235007416 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 390235007417 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 390235007418 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 390235007419 multiple promoter invertase; Provisional; Region: mpi; PRK13413 390235007420 catalytic residues [active] 390235007421 catalytic nucleophile [active] 390235007422 Presynaptic Site I dimer interface [polypeptide binding]; other site 390235007423 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 390235007424 Synaptic Flat tetramer interface [polypeptide binding]; other site 390235007425 Synaptic Site I dimer interface [polypeptide binding]; other site 390235007426 DNA binding site [nucleotide binding] 390235007427 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 390235007428 DNA-binding interface [nucleotide binding]; DNA binding site 390235007429 putative transcriptional regulator MerR; Provisional; Region: PRK13752 390235007430 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 390235007431 DNA binding residues [nucleotide binding] 390235007432 dimer interface [polypeptide binding]; other site 390235007433 mercury binding site [ion binding]; other site 390235007434 Alkylmercury lyase; Region: MerB; pfam03243 390235007435 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 390235007436 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 390235007437 DNA binding residues [nucleotide binding] 390235007438 dimer interface [polypeptide binding]; other site 390235007439 putative metal binding site [ion binding]; other site 390235007440 Heavy-metal-associated domain; Region: HMA; pfam00403 390235007441 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 390235007442 lipoprotein signal peptidase; Provisional; Region: PRK14776 390235007443 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 390235007444 Transposase; Region: DDE_Tnp_ISL3; pfam01610 390235007445 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 390235007446 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 390235007447 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 390235007448 putative DNA binding site [nucleotide binding]; other site 390235007449 dimerization interface [polypeptide binding]; other site 390235007450 putative Zn2+ binding site [ion binding]; other site 390235007451 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 390235007452 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 390235007453 catalytic residues [active] 390235007454 catalytic nucleophile [active] 390235007455 Presynaptic Site I dimer interface [polypeptide binding]; other site 390235007456 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 390235007457 Synaptic Flat tetramer interface [polypeptide binding]; other site 390235007458 Synaptic Site I dimer interface [polypeptide binding]; other site 390235007459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007460 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 390235007461 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 390235007462 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 390235007463 putative mercury resistance protein; Provisional; Region: PRK13747 390235007464 transcriptional regulator MerD; Provisional; Region: PRK13749 390235007465 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 390235007466 DNA binding residues [nucleotide binding] 390235007467 putative dimer interface [polypeptide binding]; other site 390235007468 putative mercuric reductase; Provisional; Region: PRK13748 390235007469 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 390235007470 metal-binding site [ion binding] 390235007471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235007472 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235007473 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 390235007474 metal-binding site [ion binding] 390235007475 putative mercuric transport protein; Provisional; Region: PRK13751 390235007476 putative transcriptional regulator MerR; Provisional; Region: PRK13752 390235007477 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 390235007478 DNA binding residues [nucleotide binding] 390235007479 dimer interface [polypeptide binding]; other site 390235007480 mercury binding site [ion binding]; other site 390235007481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235007482 active site 390235007483 I-site; other site 390235007484 metal binding site [ion binding]; metal-binding site 390235007485 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 390235007486 hypothetical protein; Provisional; Region: PRK06153 390235007487 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 390235007488 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 390235007489 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 390235007490 NAD-dependent deacetylase; Provisional; Region: PRK00481 390235007491 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 390235007492 NAD+ binding site [chemical binding]; other site 390235007493 substrate binding site [chemical binding]; other site 390235007494 Zn binding site [ion binding]; other site 390235007495 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 390235007496 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 390235007497 non-specific DNA binding site [nucleotide binding]; other site 390235007498 salt bridge; other site 390235007499 sequence-specific DNA binding site [nucleotide binding]; other site 390235007500 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 390235007501 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 390235007502 CHAT domain; Region: CHAT; pfam12770 390235007503 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 390235007504 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 390235007505 TIGR02594 family protein; Region: TIGR02594 390235007506 Predicted transcriptional regulator [Transcription]; Region: COG1959 390235007507 Transcriptional regulator; Region: Rrf2; pfam02082 390235007508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235007509 Coenzyme A binding pocket [chemical binding]; other site 390235007510 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 390235007511 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235007512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007514 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 390235007515 dimerization interface [polypeptide binding]; other site 390235007516 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 390235007517 active site 1 [active] 390235007518 dimer interface [polypeptide binding]; other site 390235007519 hexamer interface [polypeptide binding]; other site 390235007520 active site 2 [active] 390235007521 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 390235007522 classical (c) SDRs; Region: SDR_c; cd05233 390235007523 NAD(P) binding site [chemical binding]; other site 390235007524 active site 390235007525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007527 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 390235007528 putative effector binding pocket; other site 390235007529 dimerization interface [polypeptide binding]; other site 390235007530 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 390235007531 Bacterial SH3 domain; Region: SH3_3; pfam08239 390235007532 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 390235007533 dimer interface [polypeptide binding]; other site 390235007534 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 390235007535 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 390235007536 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 390235007537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007539 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 390235007540 putative dimerization interface [polypeptide binding]; other site 390235007541 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 390235007542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235007543 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235007544 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 390235007545 conserved cys residue [active] 390235007546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007548 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 390235007549 EamA-like transporter family; Region: EamA; pfam00892 390235007550 Uncharacterized conserved protein [Function unknown]; Region: COG0393 390235007551 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 390235007552 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 390235007553 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 390235007554 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 390235007555 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 390235007556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235007557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235007558 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 390235007559 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 390235007560 putative NAD(P) binding site [chemical binding]; other site 390235007561 active site 390235007562 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 390235007563 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 390235007564 putative catalytic residue [active] 390235007565 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 390235007566 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 390235007567 non-specific DNA binding site [nucleotide binding]; other site 390235007568 salt bridge; other site 390235007569 sequence-specific DNA binding site [nucleotide binding]; other site 390235007570 Cupin domain; Region: Cupin_2; pfam07883 390235007571 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 390235007572 putative substrate translocation pore; other site 390235007573 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235007574 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 390235007575 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 390235007576 putative heme binding pocket [chemical binding]; other site 390235007577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235007578 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 390235007579 DNA binding residues [nucleotide binding] 390235007580 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 390235007581 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 390235007582 putative catalytic site [active] 390235007583 putative phosphate binding site [ion binding]; other site 390235007584 active site 390235007585 metal binding site A [ion binding]; metal-binding site 390235007586 DNA binding site [nucleotide binding] 390235007587 putative AP binding site [nucleotide binding]; other site 390235007588 putative metal binding site B [ion binding]; other site 390235007589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235007590 Coenzyme A binding pocket [chemical binding]; other site 390235007591 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 390235007592 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235007593 Surface antigen; Region: Bac_surface_Ag; pfam01103 390235007594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 390235007595 Family of unknown function (DUF490); Region: DUF490; pfam04357 390235007596 Family of unknown function (DUF490); Region: DUF490; pfam04357 390235007597 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 390235007598 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 390235007599 Mor transcription activator family; Region: Mor; cl02360 390235007600 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 390235007601 Penicillin amidase; Region: Penicil_amidase; pfam01804 390235007602 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 390235007603 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 390235007604 active site 390235007605 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 390235007606 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 390235007607 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 390235007608 putative active site [active] 390235007609 putative metal binding site [ion binding]; other site 390235007610 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 390235007611 substrate binding site [chemical binding]; other site 390235007612 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 390235007613 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 390235007614 active site 390235007615 HIGH motif; other site 390235007616 nucleotide binding site [chemical binding]; other site 390235007617 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 390235007618 KMSKS motif; other site 390235007619 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 390235007620 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 390235007621 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 390235007622 active site 390235007623 HIGH motif; other site 390235007624 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 390235007625 KMSKS motif; other site 390235007626 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 390235007627 tRNA binding surface [nucleotide binding]; other site 390235007628 anticodon binding site; other site 390235007629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235007630 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 390235007631 dimerization interface [polypeptide binding]; other site 390235007632 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 390235007633 dimer interface [polypeptide binding]; other site 390235007634 phosphorylation site [posttranslational modification] 390235007635 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 390235007636 ATP binding site [chemical binding]; other site 390235007637 Mg2+ binding site [ion binding]; other site 390235007638 G-X-G motif; other site 390235007639 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235007640 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 390235007641 active site 390235007642 phosphorylation site [posttranslational modification] 390235007643 intermolecular recognition site; other site 390235007644 dimerization interface [polypeptide binding]; other site 390235007645 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 390235007646 DNA binding site [nucleotide binding] 390235007647 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 390235007648 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 390235007649 homodimer interface [polypeptide binding]; other site 390235007650 substrate-cofactor binding pocket; other site 390235007651 catalytic residue [active] 390235007652 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 390235007653 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235007654 Walker A/P-loop; other site 390235007655 ATP binding site [chemical binding]; other site 390235007656 Q-loop/lid; other site 390235007657 ABC transporter signature motif; other site 390235007658 Walker B; other site 390235007659 D-loop; other site 390235007660 H-loop/switch region; other site 390235007661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235007662 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 390235007663 dimer interface [polypeptide binding]; other site 390235007664 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235007665 ligand binding site [chemical binding]; other site 390235007666 UreD urease accessory protein; Region: UreD; cl00530 390235007667 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 390235007668 alpha-gamma subunit interface [polypeptide binding]; other site 390235007669 beta-gamma subunit interface [polypeptide binding]; other site 390235007670 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 390235007671 gamma-beta subunit interface [polypeptide binding]; other site 390235007672 alpha-beta subunit interface [polypeptide binding]; other site 390235007673 urease subunit alpha; Reviewed; Region: ureC; PRK13207 390235007674 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 390235007675 subunit interactions [polypeptide binding]; other site 390235007676 active site 390235007677 flap region; other site 390235007678 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 390235007679 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 390235007680 dimer interface [polypeptide binding]; other site 390235007681 catalytic residues [active] 390235007682 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 390235007683 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 390235007684 UreF; Region: UreF; pfam01730 390235007685 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 390235007686 G1 box; other site 390235007687 GTP/Mg2+ binding site [chemical binding]; other site 390235007688 Switch I region; other site 390235007689 Switch II region; other site 390235007690 G4 box; other site 390235007691 G5 box; other site 390235007692 Cache domain; Region: Cache_1; pfam02743 390235007693 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235007694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235007695 metal binding site [ion binding]; metal-binding site 390235007696 active site 390235007697 I-site; other site 390235007698 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 390235007699 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 390235007700 motif II; other site 390235007701 LexA repressor; Provisional; Region: PRK12423 390235007702 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 390235007703 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 390235007704 Catalytic site [active] 390235007705 Cell division inhibitor SulA; Region: SulA; cl01880 390235007706 DNA Polymerase Y-family; Region: PolY_like; cd03468 390235007707 active site 390235007708 DNA binding site [nucleotide binding] 390235007709 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 390235007710 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 390235007711 putative active site [active] 390235007712 putative PHP Thumb interface [polypeptide binding]; other site 390235007713 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 390235007714 generic binding surface I; other site 390235007715 generic binding surface II; other site 390235007716 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 390235007717 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235007718 active site 390235007719 catalytic tetrad [active] 390235007720 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007722 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 390235007723 putative dimerization interface [polypeptide binding]; other site 390235007724 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 390235007725 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 390235007726 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 390235007727 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235007728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007729 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235007730 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007731 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235007732 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 390235007733 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 390235007734 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 390235007735 Transporter associated domain; Region: CorC_HlyC; smart01091 390235007736 Predicted permeases [General function prediction only]; Region: RarD; COG2962 390235007737 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 390235007738 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 390235007739 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 390235007740 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 390235007741 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 390235007742 dimer interface [polypeptide binding]; other site 390235007743 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 390235007744 active site 390235007745 Fe binding site [ion binding]; other site 390235007746 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 390235007747 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 390235007748 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 390235007749 potential catalytic triad [active] 390235007750 conserved cys residue [active] 390235007751 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 390235007752 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 390235007753 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 390235007754 putative active site [active] 390235007755 heme pocket [chemical binding]; other site 390235007756 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 390235007757 dimer interface [polypeptide binding]; other site 390235007758 phosphorylation site [posttranslational modification] 390235007759 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 390235007760 ATP binding site [chemical binding]; other site 390235007761 Mg2+ binding site [ion binding]; other site 390235007762 G-X-G motif; other site 390235007763 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235007764 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 390235007765 active site 390235007766 phosphorylation site [posttranslational modification] 390235007767 intermolecular recognition site; other site 390235007768 dimerization interface [polypeptide binding]; other site 390235007769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235007770 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 390235007771 dimer interface [polypeptide binding]; other site 390235007772 phosphorylation site [posttranslational modification] 390235007773 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 390235007774 ATP binding site [chemical binding]; other site 390235007775 Mg2+ binding site [ion binding]; other site 390235007776 G-X-G motif; other site 390235007777 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235007778 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 390235007779 active site 390235007780 phosphorylation site [posttranslational modification] 390235007781 intermolecular recognition site; other site 390235007782 dimerization interface [polypeptide binding]; other site 390235007783 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 390235007784 binding surface 390235007785 Tetratricopeptide repeat; Region: TPR_16; pfam13432 390235007786 TPR motif; other site 390235007787 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 390235007788 binding surface 390235007789 TPR motif; other site 390235007790 TPR repeat; Region: TPR_11; pfam13414 390235007791 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 390235007792 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 390235007793 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235007794 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235007795 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235007796 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 390235007797 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235007798 Coenzyme A binding pocket [chemical binding]; other site 390235007799 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235007800 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235007801 Pirin-related protein [General function prediction only]; Region: COG1741 390235007802 Pirin; Region: Pirin; pfam02678 390235007803 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 390235007804 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 390235007805 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 390235007806 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 390235007807 structural tetrad; other site 390235007808 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 390235007809 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 390235007810 Cu(I) binding site [ion binding]; other site 390235007811 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 390235007812 Cu(I) binding site [ion binding]; other site 390235007813 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 390235007814 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 390235007815 SurA N-terminal domain; Region: SurA_N_3; cl07813 390235007816 Response regulator receiver domain; Region: Response_reg; pfam00072 390235007817 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 390235007818 active site 390235007819 phosphorylation site [posttranslational modification] 390235007820 intermolecular recognition site; other site 390235007821 dimerization interface [polypeptide binding]; other site 390235007822 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 390235007823 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 390235007824 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 390235007825 Walker A motif; other site 390235007826 ATP binding site [chemical binding]; other site 390235007827 Walker B motif; other site 390235007828 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 390235007829 Pilus assembly protein, PilO; Region: PilO; cl01234 390235007830 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 390235007831 binding surface 390235007832 TPR motif; other site 390235007833 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 390235007834 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235007835 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235007836 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235007837 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 390235007838 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 390235007839 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 390235007840 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 390235007841 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 390235007842 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 390235007843 curli assembly protein CsgE; Provisional; Region: PRK10386 390235007844 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; pfam10614 390235007845 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 390235007846 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cd00374 390235007847 CAS motifs; other site 390235007848 active site 390235007849 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 390235007850 Cupin domain; Region: Cupin_2; cl17218 390235007851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007853 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 390235007854 putative effector binding pocket; other site 390235007855 dimerization interface [polypeptide binding]; other site 390235007856 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235007857 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 390235007858 LysE type translocator; Region: LysE; cl00565 390235007859 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235007860 conserved cys residue [active] 390235007861 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235007862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235007863 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 390235007864 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 390235007865 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 390235007866 Predicted permeases [General function prediction only]; Region: COG0679 390235007867 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 390235007868 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 390235007869 E-class dimer interface [polypeptide binding]; other site 390235007870 P-class dimer interface [polypeptide binding]; other site 390235007871 active site 390235007872 Cu2+ binding site [ion binding]; other site 390235007873 Zn2+ binding site [ion binding]; other site 390235007874 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 390235007875 putative lipid binding site [chemical binding]; other site 390235007876 hypothetical protein; Provisional; Region: PRK11171 390235007877 Cupin domain; Region: Cupin_2; pfam07883 390235007878 Cupin domain; Region: Cupin_2; pfam07883 390235007879 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 390235007880 S-adenosylmethionine binding site [chemical binding]; other site 390235007881 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 390235007882 substrate binding site [chemical binding]; other site 390235007883 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 390235007884 putative substrate translocation pore; other site 390235007885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235007886 Predicted permeases [General function prediction only]; Region: COG0679 390235007887 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 390235007888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235007889 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235007890 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 390235007891 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 390235007892 putative substrate translocation pore; other site 390235007893 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 390235007894 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 390235007895 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 390235007896 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235007897 Walker A/P-loop; other site 390235007898 ATP binding site [chemical binding]; other site 390235007899 Q-loop/lid; other site 390235007900 ABC transporter signature motif; other site 390235007901 Walker B; other site 390235007902 D-loop; other site 390235007903 H-loop/switch region; other site 390235007904 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 390235007905 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 390235007906 Protein of unknown function (DUF796); Region: DUF796; pfam05638 390235007907 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 390235007908 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 390235007909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235007910 ligand binding site [chemical binding]; other site 390235007911 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 390235007912 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 390235007913 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 390235007914 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 390235007915 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 390235007916 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 390235007917 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 390235007918 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 390235007919 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 390235007920 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 390235007921 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 390235007922 Walker A motif; other site 390235007923 ATP binding site [chemical binding]; other site 390235007924 Walker B motif; other site 390235007925 arginine finger; other site 390235007926 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 390235007927 Walker A motif; other site 390235007928 ATP binding site [chemical binding]; other site 390235007929 Walker B motif; other site 390235007930 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 390235007931 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 390235007932 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 390235007933 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 390235007934 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 390235007935 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 390235007936 Protein of unknown function (DUF877); Region: DUF877; pfam05943 390235007937 Protein of unknown function (DUF770); Region: DUF770; pfam05591 390235007938 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 390235007939 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 390235007940 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 390235007941 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 390235007942 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 390235007943 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 390235007944 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 390235007945 PAAR motif; Region: PAAR_motif; pfam05488 390235007946 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 390235007947 RHS Repeat; Region: RHS_repeat; cl11982 390235007948 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 390235007949 RHS Repeat; Region: RHS_repeat; cl11982 390235007950 RHS Repeat; Region: RHS_repeat; pfam05593 390235007951 RHS protein; Region: RHS; pfam03527 390235007952 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235007953 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 390235007954 RHS protein; Region: RHS; pfam03527 390235007955 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235007956 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 390235007957 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 390235007958 RHS Repeat; Region: RHS_repeat; cl11982 390235007959 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 390235007960 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235007961 Helix-turn-helix domain; Region: HTH_28; pfam13518 390235007962 Winged helix-turn helix; Region: HTH_29; pfam13551 390235007963 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 390235007964 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 390235007965 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 390235007966 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235007967 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 390235007968 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 390235007969 metal binding site [ion binding]; metal-binding site 390235007970 putative dimer interface [polypeptide binding]; other site 390235007971 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 390235007972 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235007973 putative substrate translocation pore; other site 390235007974 amidase; Provisional; Region: PRK07486 390235007975 Amidase; Region: Amidase; pfam01425 390235007976 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 390235007977 Transcriptional regulator [Transcription]; Region: IclR; COG1414 390235007978 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 390235007979 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235007980 Walker A/P-loop; other site 390235007981 ATP binding site [chemical binding]; other site 390235007982 Q-loop/lid; other site 390235007983 ABC transporter signature motif; other site 390235007984 Walker B; other site 390235007985 D-loop; other site 390235007986 H-loop/switch region; other site 390235007987 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235007988 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 390235007989 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 390235007990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235007991 active site 390235007992 catalytic tetrad [active] 390235007993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235007994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007995 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 390235007996 dimerization interface [polypeptide binding]; other site 390235007997 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 390235007998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235007999 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 390235008000 putative dimerization interface [polypeptide binding]; other site 390235008001 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 390235008002 active site 390235008003 catalytic residues [active] 390235008004 metal binding site [ion binding]; metal-binding site 390235008005 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 390235008006 CoA-transferase family III; Region: CoA_transf_3; pfam02515 390235008007 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 390235008008 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 390235008009 trimer interface [polypeptide binding]; other site 390235008010 putative metal binding site [ion binding]; other site 390235008011 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235008012 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 390235008013 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 390235008014 outer membrane porin, OprD family; Region: OprD; pfam03573 390235008015 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 390235008016 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 390235008017 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235008018 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235008019 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235008020 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235008021 Transcriptional regulators [Transcription]; Region: PurR; COG1609 390235008022 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 390235008023 DNA binding site [nucleotide binding] 390235008024 domain linker motif; other site 390235008025 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 390235008026 putative dimerization interface [polypeptide binding]; other site 390235008027 putative ligand binding site [chemical binding]; other site 390235008028 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 390235008029 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 390235008030 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 390235008031 substrate binding site [chemical binding]; other site 390235008032 ATP binding site [chemical binding]; other site 390235008033 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 390235008034 D-galactonate transporter; Region: 2A0114; TIGR00893 390235008035 putative substrate translocation pore; other site 390235008036 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 390235008037 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 390235008038 dimerization interface [polypeptide binding]; other site 390235008039 ligand binding site [chemical binding]; other site 390235008040 NADP binding site [chemical binding]; other site 390235008041 catalytic site [active] 390235008042 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 390235008043 MFS transport protein AraJ; Provisional; Region: PRK10091 390235008044 putative substrate translocation pore; other site 390235008045 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 390235008046 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 390235008047 GAF domain; Region: GAF; pfam01590 390235008048 Phytochrome region; Region: PHY; pfam00360 390235008049 HWE histidine kinase; Region: HWE_HK; pfam07536 390235008050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 390235008051 active site 390235008052 phosphorylation site [posttranslational modification] 390235008053 intermolecular recognition site; other site 390235008054 dimerization interface [polypeptide binding]; other site 390235008055 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 390235008056 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 390235008057 putative NAD(P) binding site [chemical binding]; other site 390235008058 dimer interface [polypeptide binding]; other site 390235008059 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 390235008060 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 390235008061 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 390235008062 putative active site [active] 390235008063 heme pocket [chemical binding]; other site 390235008064 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 390235008065 putative active site [active] 390235008066 heme pocket [chemical binding]; other site 390235008067 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 390235008068 dimer interface [polypeptide binding]; other site 390235008069 phosphorylation site [posttranslational modification] 390235008070 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 390235008071 ATP binding site [chemical binding]; other site 390235008072 Mg2+ binding site [ion binding]; other site 390235008073 G-X-G motif; other site 390235008074 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235008075 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 390235008076 active site 390235008077 phosphorylation site [posttranslational modification] 390235008078 intermolecular recognition site; other site 390235008079 dimerization interface [polypeptide binding]; other site 390235008080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 390235008081 Protein of unknown function (DUF330); Region: DUF330; pfam03886 390235008082 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 390235008083 mce related protein; Region: MCE; pfam02470 390235008084 mce related protein; Region: MCE; pfam02470 390235008085 mce related protein; Region: MCE; pfam02470 390235008086 Paraquat-inducible protein A; Region: PqiA; pfam04403 390235008087 Paraquat-inducible protein A; Region: PqiA; pfam04403 390235008088 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 390235008089 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 390235008090 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 390235008091 TMP-binding site; other site 390235008092 ATP-binding site [chemical binding]; other site 390235008093 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235008094 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 390235008095 FMN-binding pocket [chemical binding]; other site 390235008096 flavin binding motif; other site 390235008097 phosphate binding motif [ion binding]; other site 390235008098 beta-alpha-beta structure motif; other site 390235008099 NAD binding pocket [chemical binding]; other site 390235008100 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 390235008101 catalytic loop [active] 390235008102 iron binding site [ion binding]; other site 390235008103 amidohydrolase; Provisional; Region: PRK12393 390235008104 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 390235008105 active site 390235008106 putative substrate binding pocket [chemical binding]; other site 390235008107 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235008108 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 390235008109 dimer interface [polypeptide binding]; other site 390235008110 conserved gate region; other site 390235008111 ABC-ATPase subunit interface; other site 390235008112 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 390235008113 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 390235008114 Walker A/P-loop; other site 390235008115 ATP binding site [chemical binding]; other site 390235008116 Q-loop/lid; other site 390235008117 ABC transporter signature motif; other site 390235008118 Walker B; other site 390235008119 D-loop; other site 390235008120 H-loop/switch region; other site 390235008121 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 390235008122 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 390235008123 iron-sulfur cluster [ion binding]; other site 390235008124 [2Fe-2S] cluster binding site [ion binding]; other site 390235008125 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 390235008126 hydrophobic ligand binding site; other site 390235008127 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 390235008128 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 390235008129 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 390235008130 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 390235008131 dimerization interface [polypeptide binding]; other site 390235008132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235008133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235008134 dimer interface [polypeptide binding]; other site 390235008135 putative CheW interface [polypeptide binding]; other site 390235008136 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 390235008137 dimer interface [polypeptide binding]; other site 390235008138 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235008139 metal binding site [ion binding]; metal-binding site 390235008140 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 390235008141 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 390235008142 Uncharacterized conserved protein [Function unknown]; Region: COG4925 390235008143 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 390235008144 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235008145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008146 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 390235008147 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235008148 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235008149 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 390235008150 putative substrate translocation pore; other site 390235008151 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 390235008152 intracellular protease, PfpI family; Region: PfpI; TIGR01382 390235008153 proposed catalytic triad [active] 390235008154 conserved cys residue [active] 390235008155 short chain dehydrogenase; Provisional; Region: PRK06139 390235008156 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 390235008157 putative NAD(P) binding site [chemical binding]; other site 390235008158 active site 390235008159 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 390235008160 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235008161 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 390235008162 DNA binding site [nucleotide binding] 390235008163 glutaredoxin 2; Provisional; Region: PRK10387 390235008164 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 390235008165 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 390235008166 N-terminal domain interface [polypeptide binding]; other site 390235008167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 390235008168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235008169 NAD(P) binding site [chemical binding]; other site 390235008170 active site 390235008171 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 390235008172 Trp docking motif [polypeptide binding]; other site 390235008173 putative active site [active] 390235008174 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 390235008175 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 390235008176 D-galactonate transporter; Region: 2A0114; TIGR00893 390235008177 putative substrate translocation pore; other site 390235008178 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 390235008179 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 390235008180 PYR/PP interface [polypeptide binding]; other site 390235008181 dimer interface [polypeptide binding]; other site 390235008182 TPP binding site [chemical binding]; other site 390235008183 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 390235008184 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 390235008185 TPP-binding site [chemical binding]; other site 390235008186 dimer interface [polypeptide binding]; other site 390235008187 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235008188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008189 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 390235008190 dimerization interface [polypeptide binding]; other site 390235008191 substrate binding pocket [chemical binding]; other site 390235008192 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 390235008193 Spore germination protein; Region: Spore_permease; cl17796 390235008194 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235008195 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235008196 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 390235008197 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 390235008198 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 390235008199 tetrameric interface [polypeptide binding]; other site 390235008200 NAD binding site [chemical binding]; other site 390235008201 catalytic residues [active] 390235008202 PaaX-like protein; Region: PaaX; pfam07848 390235008203 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 390235008204 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 390235008205 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 390235008206 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 390235008207 putative trimer interface [polypeptide binding]; other site 390235008208 putative metal binding site [ion binding]; other site 390235008209 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 390235008210 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 390235008211 substrate binding site [chemical binding]; other site 390235008212 oxyanion hole (OAH) forming residues; other site 390235008213 trimer interface [polypeptide binding]; other site 390235008214 enoyl-CoA hydratase; Provisional; Region: PRK08140 390235008215 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 390235008216 substrate binding site [chemical binding]; other site 390235008217 oxyanion hole (OAH) forming residues; other site 390235008218 trimer interface [polypeptide binding]; other site 390235008219 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 390235008220 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235008221 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235008222 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235008223 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 390235008224 CoenzymeA binding site [chemical binding]; other site 390235008225 subunit interaction site [polypeptide binding]; other site 390235008226 PHB binding site; other site 390235008227 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 390235008228 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 390235008229 dimer interface [polypeptide binding]; other site 390235008230 active site 390235008231 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 390235008232 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 390235008233 active site 390235008234 AMP binding site [chemical binding]; other site 390235008235 homodimer interface [polypeptide binding]; other site 390235008236 acyl-activating enzyme (AAE) consensus motif; other site 390235008237 CoA binding site [chemical binding]; other site 390235008238 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 390235008239 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 390235008240 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 390235008241 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 390235008242 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 390235008243 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 390235008244 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 390235008245 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 390235008246 FAD binding pocket [chemical binding]; other site 390235008247 FAD binding motif [chemical binding]; other site 390235008248 phosphate binding motif [ion binding]; other site 390235008249 beta-alpha-beta structure motif; other site 390235008250 NAD(p) ribose binding residues [chemical binding]; other site 390235008251 NAD binding pocket [chemical binding]; other site 390235008252 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 390235008253 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 390235008254 catalytic loop [active] 390235008255 iron binding site [ion binding]; other site 390235008256 Protein of unknown function, DUF485; Region: DUF485; pfam04341 390235008257 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 390235008258 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 390235008259 Na binding site [ion binding]; other site 390235008260 outer membrane porin, OprD family; Region: OprD; pfam03573 390235008261 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 390235008262 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 390235008263 substrate binding site [chemical binding]; other site 390235008264 dimer interface [polypeptide binding]; other site 390235008265 NADP binding site [chemical binding]; other site 390235008266 catalytic residues [active] 390235008267 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 390235008268 substrate binding site [chemical binding]; other site 390235008269 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 390235008270 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 390235008271 NAD binding site [chemical binding]; other site 390235008272 catalytic Zn binding site [ion binding]; other site 390235008273 structural Zn binding site [ion binding]; other site 390235008274 General stress protein [General function prediction only]; Region: GsiB; COG3729 390235008275 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 390235008276 active site 390235008277 Protein of unknown function DUF72; Region: DUF72; pfam01904 390235008278 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 390235008279 putative catalytic site [active] 390235008280 putative metal binding site [ion binding]; other site 390235008281 putative phosphate binding site [ion binding]; other site 390235008282 cardiolipin synthase 2; Provisional; Region: PRK11263 390235008283 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 390235008284 putative active site [active] 390235008285 catalytic site [active] 390235008286 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 390235008287 putative active site [active] 390235008288 catalytic site [active] 390235008289 Predicted integral membrane protein [Function unknown]; Region: COG0392 390235008290 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 390235008291 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 390235008292 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 390235008293 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 390235008294 active site 390235008295 DNA binding site [nucleotide binding] 390235008296 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 390235008297 DNA binding site [nucleotide binding] 390235008298 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 390235008299 nucleotide binding site [chemical binding]; other site 390235008300 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235008301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235008302 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 390235008303 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 390235008304 S-adenosylmethionine binding site [chemical binding]; other site 390235008305 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 390235008306 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 390235008307 active site 390235008308 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 390235008309 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 390235008310 putative DNA binding site [nucleotide binding]; other site 390235008311 putative homodimer interface [polypeptide binding]; other site 390235008312 nucleosidase; Provisional; Region: PRK05634 390235008313 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 390235008314 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 390235008315 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 390235008316 S-adenosylmethionine binding site [chemical binding]; other site 390235008317 TLC ATP/ADP transporter; Region: TLC; cl03940 390235008318 TLC ATP/ADP transporter; Region: TLC; cl03940 390235008319 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 390235008320 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 390235008321 active site 390235008322 catalytic tetrad [active] 390235008323 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 390235008324 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 390235008325 Sodium Bile acid symporter family; Region: SBF; cl17470 390235008326 beta-carotene hydroxylase; Region: PLN02601 390235008327 magnesium transport protein MgtC; Provisional; Region: PRK15385 390235008328 MgtC family; Region: MgtC; pfam02308 390235008329 Cache domain; Region: Cache_1; pfam02743 390235008330 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235008331 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235008332 metal binding site [ion binding]; metal-binding site 390235008333 active site 390235008334 I-site; other site 390235008335 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 390235008336 putative catalytic site [active] 390235008337 putative phosphate binding site [ion binding]; other site 390235008338 active site 390235008339 metal binding site A [ion binding]; metal-binding site 390235008340 DNA binding site [nucleotide binding] 390235008341 putative AP binding site [nucleotide binding]; other site 390235008342 putative metal binding site B [ion binding]; other site 390235008343 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 390235008344 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 390235008345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 390235008346 YheO-like PAS domain; Region: PAS_6; pfam08348 390235008347 HTH domain; Region: HTH_22; pfam13309 390235008348 hypothetical protein; Provisional; Region: PRK06815 390235008349 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 390235008350 tetramer interface [polypeptide binding]; other site 390235008351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235008352 catalytic residue [active] 390235008353 ornithine cyclodeaminase; Validated; Region: PRK06823 390235008354 ectoine utilization protein EutC; Validated; Region: PRK08291 390235008355 BCCT family transporter; Region: BCCT; pfam02028 390235008356 Putative transcription activator [Transcription]; Region: TenA; COG0819 390235008357 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 390235008358 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235008359 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235008360 metal binding site [ion binding]; metal-binding site 390235008361 active site 390235008362 I-site; other site 390235008363 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 390235008364 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 390235008365 DNA binding site [nucleotide binding] 390235008366 dimer interface [polypeptide binding]; other site 390235008367 active site 390235008368 Int/Topo IB signature motif; other site 390235008369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235008370 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 390235008371 NAD(P) binding site [chemical binding]; other site 390235008372 active site 390235008373 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 390235008374 Strictosidine synthase; Region: Str_synth; pfam03088 390235008375 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 390235008376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008377 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 390235008378 dimerization interface [polypeptide binding]; other site 390235008379 substrate binding pocket [chemical binding]; other site 390235008380 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 390235008381 active site 390235008382 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 390235008383 dimer interface [polypeptide binding]; other site 390235008384 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 390235008385 Ligand Binding Site [chemical binding]; other site 390235008386 Molecular Tunnel; other site 390235008387 Amidase; Region: Amidase; cl11426 390235008388 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 390235008389 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235008390 AMP binding site [chemical binding]; other site 390235008391 active site 390235008392 acyl-activating enzyme (AAE) consensus motif; other site 390235008393 CoA binding site [chemical binding]; other site 390235008394 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 390235008395 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 390235008396 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 390235008397 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 390235008398 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 390235008399 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 390235008400 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 390235008401 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235008402 active site 390235008403 CoA binding site [chemical binding]; other site 390235008404 AMP binding site [chemical binding]; other site 390235008405 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 390235008406 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 390235008407 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 390235008408 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 390235008409 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235008410 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 390235008411 putative substrate translocation pore; other site 390235008412 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 390235008413 [2Fe-2S] cluster binding site [ion binding]; other site 390235008414 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 390235008415 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235008416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235008417 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 390235008418 GAF domain; Region: GAF; pfam01590 390235008419 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 390235008420 Walker A motif; other site 390235008421 ATP binding site [chemical binding]; other site 390235008422 Walker B motif; other site 390235008423 arginine finger; other site 390235008424 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235008425 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 390235008426 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235008427 NAD binding site [chemical binding]; other site 390235008428 catalytic residues [active] 390235008429 substrate binding site [chemical binding]; other site 390235008430 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 390235008431 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 390235008432 Trp docking motif [polypeptide binding]; other site 390235008433 cytochrome domain interface [polypeptide binding]; other site 390235008434 active site 390235008435 Cytochrome c; Region: Cytochrom_C; pfam00034 390235008436 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235008437 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 390235008438 FMN binding site [chemical binding]; other site 390235008439 active site 390235008440 substrate binding site [chemical binding]; other site 390235008441 catalytic residue [active] 390235008442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008444 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 390235008445 putative effector binding pocket; other site 390235008446 dimerization interface [polypeptide binding]; other site 390235008447 conjugal transfer protein TrbP; Provisional; Region: PRK13882 390235008448 TraX protein; Region: TraX; pfam05857 390235008449 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 390235008450 outer membrane porin, OprD family; Region: OprD; pfam03573 390235008451 Benzoate membrane transport protein; Region: BenE; pfam03594 390235008452 benzoate transporter; Region: benE; TIGR00843 390235008453 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 390235008454 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 390235008455 dimer interface [polypeptide binding]; other site 390235008456 active site 390235008457 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 390235008458 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 390235008459 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 390235008460 octamer interface [polypeptide binding]; other site 390235008461 active site 390235008462 benzoate transport; Region: 2A0115; TIGR00895 390235008463 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 390235008464 putative substrate translocation pore; other site 390235008465 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 390235008466 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 390235008467 putative NAD(P) binding site [chemical binding]; other site 390235008468 active site 390235008469 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 390235008470 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 390235008471 catalytic loop [active] 390235008472 iron binding site [ion binding]; other site 390235008473 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 390235008474 FAD binding pocket [chemical binding]; other site 390235008475 FAD binding motif [chemical binding]; other site 390235008476 phosphate binding motif [ion binding]; other site 390235008477 beta-alpha-beta structure motif; other site 390235008478 NAD binding pocket [chemical binding]; other site 390235008479 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 390235008480 inter-subunit interface; other site 390235008481 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 390235008482 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 390235008483 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 390235008484 putative alpha subunit interface [polypeptide binding]; other site 390235008485 putative active site [active] 390235008486 putative substrate binding site [chemical binding]; other site 390235008487 Fe binding site [ion binding]; other site 390235008488 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 390235008489 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 390235008490 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 390235008491 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 390235008492 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 390235008493 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 390235008494 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 390235008495 dimer interface [polypeptide binding]; other site 390235008496 conserved gate region; other site 390235008497 putative PBP binding loops; other site 390235008498 ABC-ATPase subunit interface; other site 390235008499 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 390235008500 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 390235008501 dimer interface [polypeptide binding]; other site 390235008502 conserved gate region; other site 390235008503 putative PBP binding loops; other site 390235008504 ABC-ATPase subunit interface; other site 390235008505 PAS fold; Region: PAS_4; pfam08448 390235008506 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 390235008507 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 390235008508 Walker B motif; other site 390235008509 arginine finger; other site 390235008510 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235008511 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 390235008512 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 390235008513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235008514 NAD(P) binding site [chemical binding]; other site 390235008515 active site 390235008516 ecotin; Provisional; Region: PRK03719 390235008517 secondary substrate binding site; other site 390235008518 primary substrate binding site; other site 390235008519 inhibition loop; other site 390235008520 dimerization interface [polypeptide binding]; other site 390235008521 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 390235008522 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 390235008523 acyl-activating enzyme (AAE) consensus motif; other site 390235008524 putative AMP binding site [chemical binding]; other site 390235008525 putative active site [active] 390235008526 putative CoA binding site [chemical binding]; other site 390235008527 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 390235008528 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235008529 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235008530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008531 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235008532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008533 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235008534 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 390235008535 active site 390235008536 metal binding site [ion binding]; metal-binding site 390235008537 Predicted amidohydrolase [General function prediction only]; Region: COG0388 390235008538 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 390235008539 active site 390235008540 catalytic triad [active] 390235008541 dimer interface [polypeptide binding]; other site 390235008542 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 390235008543 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 390235008544 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 390235008545 DNA binding site [nucleotide binding] 390235008546 active site 390235008547 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 390235008548 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 390235008549 classical (c) SDRs; Region: SDR_c; cd05233 390235008550 NAD(P) binding site [chemical binding]; other site 390235008551 active site 390235008552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008553 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235008554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008555 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 390235008556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235008557 NAD(P) binding site [chemical binding]; other site 390235008558 active site 390235008559 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 390235008560 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235008561 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235008562 PAAR motif; Region: PAAR_motif; cl15808 390235008563 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 390235008564 PAAR motif; Region: PAAR_motif; pfam05488 390235008565 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 390235008566 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 390235008567 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 390235008568 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 390235008569 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 390235008570 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 390235008571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 390235008572 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 390235008573 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 390235008574 active site 390235008575 DNA binding site [nucleotide binding] 390235008576 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 390235008577 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 390235008578 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 390235008579 Catalytic site [active] 390235008580 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 390235008581 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 390235008582 active site 390235008583 Int/Topo IB signature motif; other site 390235008584 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 390235008585 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235008586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235008587 Walker A/P-loop; other site 390235008588 ATP binding site [chemical binding]; other site 390235008589 ABC transporter signature motif; other site 390235008590 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235008591 Walker B; other site 390235008592 ABC transporter; Region: ABC_tran_2; pfam12848 390235008593 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235008594 putative transporter; Provisional; Region: PRK12382 390235008595 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 390235008596 azoreductase; Reviewed; Region: PRK00170 390235008597 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235008598 LysR family transcriptional regulator; Provisional; Region: PRK14997 390235008599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008600 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 390235008601 dimerization interface [polypeptide binding]; other site 390235008602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 390235008603 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 390235008604 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 390235008605 Cache domain; Region: Cache_2; pfam08269 390235008606 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235008607 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 390235008608 dimerization interface [polypeptide binding]; other site 390235008609 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235008610 dimer interface [polypeptide binding]; other site 390235008611 putative CheW interface [polypeptide binding]; other site 390235008612 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 390235008613 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 390235008614 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 390235008615 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 390235008616 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 390235008617 AAA domain; Region: AAA_28; pfam13521 390235008618 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39G; cd02423 390235008619 putative active site [active] 390235008620 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 390235008621 Sulfatase; Region: Sulfatase; pfam00884 390235008622 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235008623 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 390235008624 Walker A motif; other site 390235008625 ATP binding site [chemical binding]; other site 390235008626 Walker B motif; other site 390235008627 arginine finger; other site 390235008628 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235008629 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 390235008630 metal ion-dependent adhesion site (MIDAS); other site 390235008631 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 390235008632 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 390235008633 Walker A motif; other site 390235008634 ATP binding site [chemical binding]; other site 390235008635 Walker B motif; other site 390235008636 arginine finger; other site 390235008637 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 390235008638 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 390235008639 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 390235008640 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 390235008641 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 390235008642 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 390235008643 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 390235008644 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 390235008645 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 390235008646 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 390235008647 active site 390235008648 SAM binding site [chemical binding]; other site 390235008649 homodimer interface [polypeptide binding]; other site 390235008650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 390235008651 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 390235008652 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235008653 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 390235008654 active site 390235008655 phosphorylation site [posttranslational modification] 390235008656 intermolecular recognition site; other site 390235008657 dimerization interface [polypeptide binding]; other site 390235008658 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 390235008659 DNA binding residues [nucleotide binding] 390235008660 dimerization interface [polypeptide binding]; other site 390235008661 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235008662 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 390235008663 substrate binding pocket [chemical binding]; other site 390235008664 membrane-bound complex binding site; other site 390235008665 hinge residues; other site 390235008666 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 390235008667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235008668 substrate binding pocket [chemical binding]; other site 390235008669 membrane-bound complex binding site; other site 390235008670 hinge residues; other site 390235008671 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235008672 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 390235008673 dimer interface [polypeptide binding]; other site 390235008674 phosphorylation site [posttranslational modification] 390235008675 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 390235008676 ATP binding site [chemical binding]; other site 390235008677 Mg2+ binding site [ion binding]; other site 390235008678 G-X-G motif; other site 390235008679 Response regulator receiver domain; Region: Response_reg; pfam00072 390235008680 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 390235008681 active site 390235008682 phosphorylation site [posttranslational modification] 390235008683 intermolecular recognition site; other site 390235008684 dimerization interface [polypeptide binding]; other site 390235008685 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 390235008686 PAS domain; Region: PAS_9; pfam13426 390235008687 putative active site [active] 390235008688 heme pocket [chemical binding]; other site 390235008689 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 390235008690 PAS domain; Region: PAS_9; pfam13426 390235008691 putative active site [active] 390235008692 heme pocket [chemical binding]; other site 390235008693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235008694 dimer interface [polypeptide binding]; other site 390235008695 putative CheW interface [polypeptide binding]; other site 390235008696 Transcriptional regulators [Transcription]; Region: PurR; COG1609 390235008697 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 390235008698 DNA binding site [nucleotide binding] 390235008699 domain linker motif; other site 390235008700 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 390235008701 putative ligand binding site [chemical binding]; other site 390235008702 putative dimerization interface [polypeptide binding]; other site 390235008703 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 390235008704 AAA domain; Region: AAA_33; pfam13671 390235008705 ATP-binding site [chemical binding]; other site 390235008706 Gluconate-6-phosphate binding site [chemical binding]; other site 390235008707 fructuronate transporter; Provisional; Region: PRK10034; cl15264 390235008708 GntP family permease; Region: GntP_permease; pfam02447 390235008709 hydroperoxidase II; Provisional; Region: katE; PRK11249 390235008710 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235008711 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 390235008712 active site 390235008713 phosphorylation site [posttranslational modification] 390235008714 intermolecular recognition site; other site 390235008715 dimerization interface [polypeptide binding]; other site 390235008716 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 390235008717 Walker A motif; other site 390235008718 ATP binding site [chemical binding]; other site 390235008719 Walker B motif; other site 390235008720 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235008721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235008722 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 390235008723 dimer interface [polypeptide binding]; other site 390235008724 phosphorylation site [posttranslational modification] 390235008725 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 390235008726 ATP binding site [chemical binding]; other site 390235008727 Mg2+ binding site [ion binding]; other site 390235008728 G-X-G motif; other site 390235008729 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 390235008730 dimer interface [polypeptide binding]; other site 390235008731 phosphorylation site [posttranslational modification] 390235008732 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 390235008733 ATP binding site [chemical binding]; other site 390235008734 Mg2+ binding site [ion binding]; other site 390235008735 G-X-G motif; other site 390235008736 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 390235008737 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235008738 catalytic residue [active] 390235008739 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 390235008740 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 390235008741 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 390235008742 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235008743 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235008744 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 390235008745 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 390235008746 active site 390235008747 DNA binding site [nucleotide binding] 390235008748 Int/Topo IB signature motif; other site 390235008749 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 390235008750 aspartate aminotransferase; Provisional; Region: PRK05764 390235008751 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 390235008752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235008753 homodimer interface [polypeptide binding]; other site 390235008754 catalytic residue [active] 390235008755 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 390235008756 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 390235008757 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 390235008758 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 390235008759 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235008760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235008761 metal binding site [ion binding]; metal-binding site 390235008762 active site 390235008763 I-site; other site 390235008764 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 390235008765 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235008766 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 390235008767 Protein export membrane protein; Region: SecD_SecF; cl14618 390235008768 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 390235008769 Protein export membrane protein; Region: SecD_SecF; cl14618 390235008770 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235008771 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235008772 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 390235008773 dimer interface [polypeptide binding]; other site 390235008774 catalytic triad [active] 390235008775 peroxidatic and resolving cysteines [active] 390235008776 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 390235008777 serine transporter; Region: stp; TIGR00814 390235008778 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 390235008779 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 390235008780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235008781 homodimer interface [polypeptide binding]; other site 390235008782 catalytic residue [active] 390235008783 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 390235008784 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 390235008785 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 390235008786 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 390235008787 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 390235008788 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235008789 substrate binding pocket [chemical binding]; other site 390235008790 membrane-bound complex binding site; other site 390235008791 hinge residues; other site 390235008792 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235008793 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 390235008794 dimer interface [polypeptide binding]; other site 390235008795 conserved gate region; other site 390235008796 putative PBP binding loops; other site 390235008797 ABC-ATPase subunit interface; other site 390235008798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235008799 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 390235008800 dimer interface [polypeptide binding]; other site 390235008801 conserved gate region; other site 390235008802 putative PBP binding loops; other site 390235008803 ABC-ATPase subunit interface; other site 390235008804 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235008805 TrkA-N domain; Region: TrkA_N; pfam02254 390235008806 hydroxyglutarate oxidase; Provisional; Region: PRK11728 390235008807 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 390235008808 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235008809 Walker A/P-loop; other site 390235008810 ATP binding site [chemical binding]; other site 390235008811 Q-loop/lid; other site 390235008812 ABC transporter signature motif; other site 390235008813 Walker B; other site 390235008814 D-loop; other site 390235008815 H-loop/switch region; other site 390235008816 Peptidase C26; Region: Peptidase_C26; pfam07722 390235008817 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 390235008818 catalytic triad [active] 390235008819 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 390235008820 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 390235008821 putative active site [active] 390235008822 catalytic residue [active] 390235008823 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 390235008824 D-galactonate transporter; Region: 2A0114; TIGR00893 390235008825 putative substrate translocation pore; other site 390235008826 galactarate dehydratase; Region: galactar-dH20; TIGR03248 390235008827 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 390235008828 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 390235008829 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 390235008830 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 390235008831 dimer interface [polypeptide binding]; other site 390235008832 NADP binding site [chemical binding]; other site 390235008833 catalytic residues [active] 390235008834 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235008835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235008836 DNA-binding site [nucleotide binding]; DNA binding site 390235008837 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235008838 Protein of unknown function (DUF998); Region: DUF998; pfam06197 390235008839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008841 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 390235008842 putative effector binding pocket; other site 390235008843 dimerization interface [polypeptide binding]; other site 390235008844 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 390235008845 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 390235008846 NADP binding site [chemical binding]; other site 390235008847 dimer interface [polypeptide binding]; other site 390235008848 Predicted transporter component [General function prediction only]; Region: COG2391 390235008849 Sulphur transport; Region: Sulf_transp; pfam04143 390235008850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008852 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 390235008853 putative substrate binding pocket [chemical binding]; other site 390235008854 putative dimerization interface [polypeptide binding]; other site 390235008855 Protein of unknown function, DUF606; Region: DUF606; pfam04657 390235008856 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 390235008857 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 390235008858 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 390235008859 YcaO domain protein; Region: TIGR03549 390235008860 OsmC-like protein; Region: OsmC; pfam02566 390235008861 YcaO-like family; Region: YcaO; pfam02624 390235008862 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 390235008863 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 390235008864 catalytic loop [active] 390235008865 iron binding site [ion binding]; other site 390235008866 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 390235008867 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235008868 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 390235008869 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 390235008870 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235008871 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235008872 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235008873 Cytochrome c; Region: Cytochrom_C; pfam00034 390235008874 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235008875 Cytochrome c; Region: Cytochrom_C; pfam00034 390235008876 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 390235008877 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 390235008878 XdhC Rossmann domain; Region: XdhC_C; pfam13478 390235008879 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 390235008880 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235008881 substrate binding pocket [chemical binding]; other site 390235008882 membrane-bound complex binding site; other site 390235008883 hinge residues; other site 390235008884 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 390235008885 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 390235008886 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 390235008887 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235008888 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 390235008889 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 390235008890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235008891 NAD(P) binding site [chemical binding]; other site 390235008892 active site 390235008893 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 390235008894 D-galactonate transporter; Region: 2A0114; TIGR00893 390235008895 putative substrate translocation pore; other site 390235008896 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 390235008897 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 390235008898 active site 390235008899 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008901 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 390235008902 dimerization interface [polypeptide binding]; other site 390235008903 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 390235008904 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 390235008905 Isochorismatase family; Region: Isochorismatase; pfam00857 390235008906 catalytic triad [active] 390235008907 conserved cis-peptide bond; other site 390235008908 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 390235008909 hypothetical protein; Provisional; Region: PRK05409 390235008910 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 390235008911 SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate...; Region: SPARC_EC; cd00252 390235008912 EF-hand domain pair; Region: EF_hand_5; pfam13499 390235008913 EF-hand Ca2+ binding loops [ion binding]; other site 390235008914 FS-domain interface [polypeptide binding]; other site 390235008915 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 390235008916 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 390235008917 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 390235008918 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 390235008919 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 390235008920 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 390235008921 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235008922 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235008923 GAF domain; Region: GAF; pfam01590 390235008924 PAS fold; Region: PAS_4; pfam08448 390235008925 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 390235008926 putative active site [active] 390235008927 heme pocket [chemical binding]; other site 390235008928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 390235008929 Histidine kinase; Region: HisKA_2; pfam07568 390235008930 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 390235008931 ATP binding site [chemical binding]; other site 390235008932 Mg2+ binding site [ion binding]; other site 390235008933 G-X-G motif; other site 390235008934 short chain dehydrogenase; Provisional; Region: PRK06701 390235008935 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 390235008936 NAD binding site [chemical binding]; other site 390235008937 metal binding site [ion binding]; metal-binding site 390235008938 active site 390235008939 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 390235008940 hypothetical protein; Provisional; Region: PRK09272 390235008941 chromosome condensation membrane protein; Provisional; Region: PRK14196 390235008942 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 390235008943 HAMP domain; Region: HAMP; pfam00672 390235008944 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235008945 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235008946 dimer interface [polypeptide binding]; other site 390235008947 putative CheW interface [polypeptide binding]; other site 390235008948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008950 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 390235008951 putative effector binding pocket; other site 390235008952 dimerization interface [polypeptide binding]; other site 390235008953 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235008954 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 390235008955 Family of unknown function (DUF633); Region: DUF633; pfam04816 390235008956 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 390235008957 homotrimer interaction site [polypeptide binding]; other site 390235008958 putative active site [active] 390235008959 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 390235008960 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 390235008961 Peptidase family U32; Region: Peptidase_U32; pfam01136 390235008962 Collagenase; Region: DUF3656; pfam12392 390235008963 putative aminotransferase; Provisional; Region: PRK12403 390235008964 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 390235008965 inhibitor-cofactor binding pocket; inhibition site 390235008966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235008967 catalytic residue [active] 390235008968 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235008969 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 390235008970 NAD(P) binding site [chemical binding]; other site 390235008971 catalytic residues [active] 390235008972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235008973 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 390235008974 DNA binding residues [nucleotide binding] 390235008975 dimerization interface [polypeptide binding]; other site 390235008976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235008977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235008978 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 390235008979 putative dimerization interface [polypeptide binding]; other site 390235008980 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 390235008981 Malonate transporter MadL subunit; Region: MadL; pfam03817 390235008982 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 390235008983 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 390235008984 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 390235008985 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 390235008986 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 390235008987 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 390235008988 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 390235008989 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 390235008990 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 390235008991 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 390235008992 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 390235008993 substrate binding site [chemical binding]; other site 390235008994 oxyanion hole (OAH) forming residues; other site 390235008995 trimer interface [polypeptide binding]; other site 390235008996 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 390235008997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235008998 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235008999 active site 390235009000 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235009001 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235009002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009003 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 390235009004 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235009005 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 390235009006 nucleophilic elbow; other site 390235009007 catalytic triad; other site 390235009008 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 390235009009 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 390235009010 active site 390235009011 universal stress protein UspE; Provisional; Region: PRK11175 390235009012 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 390235009013 Ligand Binding Site [chemical binding]; other site 390235009014 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 390235009015 Ligand Binding Site [chemical binding]; other site 390235009016 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235009017 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 390235009018 N-terminal plug; other site 390235009019 ligand-binding site [chemical binding]; other site 390235009020 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 390235009021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009023 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 390235009024 putative dimerization interface [polypeptide binding]; other site 390235009025 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 390235009026 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 390235009027 NAD(P) binding site [chemical binding]; other site 390235009028 catalytic residues [active] 390235009029 AAA domain; Region: AAA_30; pfam13604 390235009030 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 390235009031 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235009032 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235009033 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235009034 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 390235009035 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235009036 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235009037 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235009038 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 390235009039 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 390235009040 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 390235009041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009042 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235009043 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 390235009044 dimerization interface [polypeptide binding]; other site 390235009045 substrate binding pocket [chemical binding]; other site 390235009046 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 390235009047 Sulfatase; Region: Sulfatase; pfam00884 390235009048 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 390235009049 Bacterial sugar transferase; Region: Bac_transf; pfam02397 390235009050 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 390235009051 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235009052 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 390235009053 DXD motif; other site 390235009054 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 390235009055 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 390235009056 putative ADP-binding pocket [chemical binding]; other site 390235009057 Protein of unknown function (DUF535); Region: DUF535; pfam04393 390235009058 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235009059 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 390235009060 active site 390235009061 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 390235009062 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 390235009063 trimer interface [polypeptide binding]; other site 390235009064 active site 390235009065 substrate binding site [chemical binding]; other site 390235009066 CoA binding site [chemical binding]; other site 390235009067 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 390235009068 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 390235009069 active site 390235009070 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 390235009071 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 390235009072 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 390235009073 trimer interface [polypeptide binding]; other site 390235009074 active site 390235009075 substrate binding site [chemical binding]; other site 390235009076 CoA binding site [chemical binding]; other site 390235009077 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 390235009078 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235009079 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235009080 colanic acid exporter; Provisional; Region: PRK10459 390235009081 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 390235009082 O-Antigen ligase; Region: Wzy_C; pfam04932 390235009083 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 390235009084 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 390235009085 NAD binding site [chemical binding]; other site 390235009086 homodimer interface [polypeptide binding]; other site 390235009087 active site 390235009088 substrate binding site [chemical binding]; other site 390235009089 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 390235009090 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 390235009091 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 390235009092 Chain length determinant protein; Region: Wzz; cl15801 390235009093 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 390235009094 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 390235009095 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 390235009096 SLBB domain; Region: SLBB; pfam10531 390235009097 Protein of unknown function (DUF563); Region: DUF563; pfam04577 390235009098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 390235009099 Leucine rich repeat; Region: LRR_8; pfam13855 390235009100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235009101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235009102 metal binding site [ion binding]; metal-binding site 390235009103 active site 390235009104 I-site; other site 390235009105 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 390235009106 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 390235009107 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 390235009108 tetrameric interface [polypeptide binding]; other site 390235009109 activator binding site; other site 390235009110 NADP binding site [chemical binding]; other site 390235009111 substrate binding site [chemical binding]; other site 390235009112 catalytic residues [active] 390235009113 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 390235009114 putative dimer interface [polypeptide binding]; other site 390235009115 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235009116 threonine dehydratase; Reviewed; Region: PRK12483 390235009117 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 390235009118 tetramer interface [polypeptide binding]; other site 390235009119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235009120 catalytic residue [active] 390235009121 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 390235009122 putative Ile/Val binding site [chemical binding]; other site 390235009123 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 390235009124 putative Ile/Val binding site [chemical binding]; other site 390235009125 Predicted membrane protein [Function unknown]; Region: COG4125 390235009126 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235009127 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235009128 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 390235009129 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 390235009130 active site 390235009131 homodimer interface [polypeptide binding]; other site 390235009132 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 390235009133 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 390235009134 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 390235009135 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 390235009136 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 390235009137 hypothetical protein; Provisional; Region: PRK09936 390235009138 sensor protein RstB; Provisional; Region: PRK10604 390235009139 HAMP domain; Region: HAMP; pfam00672 390235009140 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 390235009141 dimer interface [polypeptide binding]; other site 390235009142 phosphorylation site [posttranslational modification] 390235009143 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 390235009144 ATP binding site [chemical binding]; other site 390235009145 Mg2+ binding site [ion binding]; other site 390235009146 G-X-G motif; other site 390235009147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235009148 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 390235009149 active site 390235009150 phosphorylation site [posttranslational modification] 390235009151 intermolecular recognition site; other site 390235009152 dimerization interface [polypeptide binding]; other site 390235009153 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 390235009154 DNA binding site [nucleotide binding] 390235009155 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 390235009156 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 390235009157 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235009158 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 390235009159 Protein export membrane protein; Region: SecD_SecF; cl14618 390235009160 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 390235009161 Fic/DOC family; Region: Fic; pfam02661 390235009162 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 390235009163 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 390235009164 GTP binding site; other site 390235009165 acyl-CoA synthetase; Provisional; Region: PRK12583 390235009166 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235009167 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 390235009168 acyl-activating enzyme (AAE) consensus motif; other site 390235009169 putative AMP binding site [chemical binding]; other site 390235009170 putative active site [active] 390235009171 putative CoA binding site [chemical binding]; other site 390235009172 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 390235009173 MutS domain II; Region: MutS_II; pfam05188 390235009174 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 390235009175 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 390235009176 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 390235009177 FeS/SAM binding site; other site 390235009178 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 390235009179 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 390235009180 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 390235009181 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 390235009182 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 390235009183 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 390235009184 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235009185 NAD(P) binding site [chemical binding]; other site 390235009186 catalytic residues [active] 390235009187 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 390235009188 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 390235009189 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 390235009190 active site 390235009191 catalytic residues [active] 390235009192 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 390235009193 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235009194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235009195 Walker A/P-loop; other site 390235009196 ATP binding site [chemical binding]; other site 390235009197 Q-loop/lid; other site 390235009198 ABC transporter signature motif; other site 390235009199 Walker B; other site 390235009200 D-loop; other site 390235009201 H-loop/switch region; other site 390235009202 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 390235009203 GAF domain; Region: GAF; pfam01590 390235009204 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 390235009205 putative active site [active] 390235009206 heme pocket [chemical binding]; other site 390235009207 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 390235009208 ATP binding site [chemical binding]; other site 390235009209 Walker A motif; other site 390235009210 Walker B motif; other site 390235009211 arginine finger; other site 390235009212 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235009213 Curlin associated repeat; Region: Curlin_rpt; pfam07012 390235009214 Curlin associated repeat; Region: Curlin_rpt; pfam07012 390235009215 Curlin associated repeat; Region: Curlin_rpt; pfam07012 390235009216 major curlin subunit; Provisional; Region: csgA; PRK10051 390235009217 major curlin subunit; Provisional; Region: csgA; PRK10051 390235009218 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 390235009219 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 390235009220 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 390235009221 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 390235009222 Trp docking motif [polypeptide binding]; other site 390235009223 putative active site [active] 390235009224 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 390235009225 acetylornithine deacetylase; Provisional; Region: PRK07522 390235009226 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 390235009227 metal binding site [ion binding]; metal-binding site 390235009228 putative dimer interface [polypeptide binding]; other site 390235009229 Uncharacterized conserved protein [Function unknown]; Region: COG3342 390235009230 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 390235009231 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 390235009232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235009233 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 390235009234 homotrimer interaction site [polypeptide binding]; other site 390235009235 putative active site [active] 390235009236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009238 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 390235009239 putative substrate binding pocket [chemical binding]; other site 390235009240 dimerization interface [polypeptide binding]; other site 390235009241 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235009242 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 390235009243 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 390235009244 putative substrate translocation pore; other site 390235009245 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 390235009246 dimer interface [polypeptide binding]; other site 390235009247 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 390235009248 metal binding site [ion binding]; metal-binding site 390235009249 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235009250 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235009251 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 390235009252 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 390235009253 Family description; Region: UvrD_C_2; pfam13538 390235009254 Pirin-related protein [General function prediction only]; Region: COG1741 390235009255 Pirin; Region: Pirin; pfam02678 390235009256 phosphoglucomutase; Validated; Region: PRK07564 390235009257 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 390235009258 active site 390235009259 substrate binding site [chemical binding]; other site 390235009260 metal binding site [ion binding]; metal-binding site 390235009261 DNA repair helicase (rad3); Region: rad3; TIGR00604 390235009262 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 390235009263 DEAD_2; Region: DEAD_2; pfam06733 390235009264 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 390235009265 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 390235009266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235009267 Coenzyme A binding pocket [chemical binding]; other site 390235009268 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 390235009269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235009270 DNA-binding site [nucleotide binding]; DNA binding site 390235009271 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 390235009272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235009273 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 390235009274 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235009275 putative NAD(P) binding site [chemical binding]; other site 390235009276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009278 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 390235009279 putative substrate binding pocket [chemical binding]; other site 390235009280 putative dimerization interface [polypeptide binding]; other site 390235009281 thiamine pyrophosphate protein; Provisional; Region: PRK08273 390235009282 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 390235009283 PYR/PP interface [polypeptide binding]; other site 390235009284 dimer interface [polypeptide binding]; other site 390235009285 tetramer interface [polypeptide binding]; other site 390235009286 TPP binding site [chemical binding]; other site 390235009287 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235009288 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 390235009289 TPP-binding site [chemical binding]; other site 390235009290 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 390235009291 active site 390235009292 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 390235009293 catalytic core [active] 390235009294 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 390235009295 active site 390235009296 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235009297 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 390235009298 active site 390235009299 phosphorylation site [posttranslational modification] 390235009300 intermolecular recognition site; other site 390235009301 dimerization interface [polypeptide binding]; other site 390235009302 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 390235009303 DNA binding site [nucleotide binding] 390235009304 putative metal dependent hydrolase; Provisional; Region: PRK11598 390235009305 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 390235009306 Sulfatase; Region: Sulfatase; pfam00884 390235009307 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 390235009308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 390235009309 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 390235009310 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235009311 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 390235009312 substrate binding pocket [chemical binding]; other site 390235009313 membrane-bound complex binding site; other site 390235009314 hinge residues; other site 390235009315 putrescine transporter; Provisional; Region: potE; PRK10655 390235009316 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 390235009317 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 390235009318 Walker A/P-loop; other site 390235009319 ATP binding site [chemical binding]; other site 390235009320 Q-loop/lid; other site 390235009321 ABC transporter signature motif; other site 390235009322 Walker B; other site 390235009323 D-loop; other site 390235009324 H-loop/switch region; other site 390235009325 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 390235009326 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 390235009327 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235009328 TM-ABC transporter signature motif; other site 390235009329 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235009330 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 390235009331 TM-ABC transporter signature motif; other site 390235009332 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 390235009333 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 390235009334 putative ligand binding site [chemical binding]; other site 390235009335 oxidase reductase; Provisional; Region: PTZ00273 390235009336 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 390235009337 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 390235009338 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 390235009339 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 390235009340 metal binding site [ion binding]; metal-binding site 390235009341 putative dimer interface [polypeptide binding]; other site 390235009342 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 390235009343 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235009344 putative substrate translocation pore; other site 390235009345 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 390235009346 trimer interface [polypeptide binding]; other site 390235009347 eyelet of channel; other site 390235009348 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 390235009349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009350 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 390235009351 dimerization interface [polypeptide binding]; other site 390235009352 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 390235009353 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 390235009354 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 390235009355 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235009356 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 390235009357 N-terminal plug; other site 390235009358 ligand-binding site [chemical binding]; other site 390235009359 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 390235009360 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 390235009361 nickel-responsive transcriptional regulator NikR; Region: nikR; TIGR02793 390235009362 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 390235009363 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 390235009364 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 390235009365 substrate binding site [chemical binding]; other site 390235009366 nickel transporter permease NikB; Provisional; Region: PRK10352 390235009367 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 390235009368 dimer interface [polypeptide binding]; other site 390235009369 conserved gate region; other site 390235009370 putative PBP binding loops; other site 390235009371 ABC-ATPase subunit interface; other site 390235009372 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 390235009373 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 390235009374 putative PBP binding loops; other site 390235009375 dimer interface [polypeptide binding]; other site 390235009376 ABC-ATPase subunit interface; other site 390235009377 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 390235009378 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235009379 Walker A/P-loop; other site 390235009380 ATP binding site [chemical binding]; other site 390235009381 Q-loop/lid; other site 390235009382 ABC transporter signature motif; other site 390235009383 Walker B; other site 390235009384 D-loop; other site 390235009385 H-loop/switch region; other site 390235009386 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 390235009387 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235009388 Walker A/P-loop; other site 390235009389 ATP binding site [chemical binding]; other site 390235009390 Q-loop/lid; other site 390235009391 ABC transporter signature motif; other site 390235009392 Walker B; other site 390235009393 D-loop; other site 390235009394 H-loop/switch region; other site 390235009395 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235009396 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235009397 metal binding site [ion binding]; metal-binding site 390235009398 active site 390235009399 I-site; other site 390235009400 Uncharacterized conserved protein [Function unknown]; Region: COG2308 390235009401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 390235009402 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 390235009403 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 390235009404 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 390235009405 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 390235009406 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 390235009407 active site 390235009408 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 390235009409 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 390235009410 Chromate transporter; Region: Chromate_transp; pfam02417 390235009411 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 390235009412 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 390235009413 dimer interface [polypeptide binding]; other site 390235009414 phosphorylation site [posttranslational modification] 390235009415 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 390235009416 ATP binding site [chemical binding]; other site 390235009417 Mg2+ binding site [ion binding]; other site 390235009418 G-X-G motif; other site 390235009419 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 390235009420 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 390235009421 active site 390235009422 phosphorylation site [posttranslational modification] 390235009423 intermolecular recognition site; other site 390235009424 dimerization interface [polypeptide binding]; other site 390235009425 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 390235009426 DNA binding site [nucleotide binding] 390235009427 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 390235009428 TPR motif; other site 390235009429 short chain dehydrogenase; Provisional; Region: PRK09072 390235009430 classical (c) SDRs; Region: SDR_c; cd05233 390235009431 NAD(P) binding site [chemical binding]; other site 390235009432 active site 390235009433 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 390235009434 heme binding pocket [chemical binding]; other site 390235009435 heme ligand [chemical binding]; other site 390235009436 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 390235009437 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 390235009438 acyl-activating enzyme (AAE) consensus motif; other site 390235009439 putative AMP binding site [chemical binding]; other site 390235009440 putative active site [active] 390235009441 putative CoA binding site [chemical binding]; other site 390235009442 Thermostable hemolysin; Region: T_hemolysin; pfam12261 390235009443 Ion channel; Region: Ion_trans_2; pfam07885 390235009444 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 390235009445 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 390235009446 Beta-Casp domain; Region: Beta-Casp; smart01027 390235009447 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 390235009448 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 390235009449 Ligand Binding Site [chemical binding]; other site 390235009450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235009451 Coenzyme A binding pocket [chemical binding]; other site 390235009452 universal stress protein UspE; Provisional; Region: PRK11175 390235009453 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 390235009454 Ligand Binding Site [chemical binding]; other site 390235009455 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 390235009456 Ligand Binding Site [chemical binding]; other site 390235009457 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 390235009458 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 390235009459 tetramer interface [polypeptide binding]; other site 390235009460 catalytic Zn binding site [ion binding]; other site 390235009461 NADP binding site [chemical binding]; other site 390235009462 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 390235009463 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 390235009464 ligand binding site [chemical binding]; other site 390235009465 flexible hinge region; other site 390235009466 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 390235009467 non-specific DNA interactions [nucleotide binding]; other site 390235009468 DNA binding site [nucleotide binding] 390235009469 sequence specific DNA binding site [nucleotide binding]; other site 390235009470 putative cAMP binding site [chemical binding]; other site 390235009471 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 390235009472 Ligand Binding Site [chemical binding]; other site 390235009473 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 390235009474 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 390235009475 ATP binding site [chemical binding]; other site 390235009476 Predicted membrane protein [Function unknown]; Region: COG4125 390235009477 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235009478 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 390235009479 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 390235009480 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 390235009481 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 390235009482 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009484 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 390235009485 putative dimerization interface [polypeptide binding]; other site 390235009486 Uncharacterized conserved protein [Function unknown]; Region: COG3777 390235009487 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 390235009488 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 390235009489 active site 2 [active] 390235009490 active site 1 [active] 390235009491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235009492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235009493 active site 390235009494 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 390235009495 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 390235009496 CoA-transferase family III; Region: CoA_transf_3; pfam02515 390235009497 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 390235009498 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 390235009499 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 390235009500 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 390235009501 DctM-like transporters; Region: DctM; pfam06808 390235009502 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 390235009503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009505 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 390235009506 dimerization interface [polypeptide binding]; other site 390235009507 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 390235009508 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 390235009509 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 390235009510 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 390235009511 active site 390235009512 putative substrate binding pocket [chemical binding]; other site 390235009513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 390235009514 Anti-sigma-K factor rskA; Region: RskA; pfam10099 390235009515 RNA polymerase sigma factor; Provisional; Region: PRK12537 390235009516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235009517 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 390235009518 DNA binding residues [nucleotide binding] 390235009519 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 390235009520 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 390235009521 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 390235009522 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 390235009523 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 390235009524 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 390235009525 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235009526 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235009527 ligand binding site [chemical binding]; other site 390235009528 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 390235009529 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235009530 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 390235009531 FAD binding site [chemical binding]; other site 390235009532 substrate binding site [chemical binding]; other site 390235009533 catalytic base [active] 390235009534 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 390235009535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009536 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 390235009537 substrate binding pocket [chemical binding]; other site 390235009538 dimerization interface [polypeptide binding]; other site 390235009539 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 390235009540 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 390235009541 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235009542 catalytic residue [active] 390235009543 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 390235009544 FMN binding site [chemical binding]; other site 390235009545 dimer interface [polypeptide binding]; other site 390235009546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009548 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 390235009549 putative effector binding pocket; other site 390235009550 dimerization interface [polypeptide binding]; other site 390235009551 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235009552 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235009553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009555 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235009556 putative arabinose transporter; Provisional; Region: PRK03545 390235009557 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 390235009558 putative substrate translocation pore; other site 390235009559 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 390235009560 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 390235009561 putative NAD(P) binding site [chemical binding]; other site 390235009562 putative substrate binding site [chemical binding]; other site 390235009563 catalytic Zn binding site [ion binding]; other site 390235009564 structural Zn binding site [ion binding]; other site 390235009565 dimer interface [polypeptide binding]; other site 390235009566 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 390235009567 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235009568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009570 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235009571 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235009572 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 390235009573 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235009574 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 390235009575 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 390235009576 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 390235009577 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 390235009578 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235009579 Coenzyme A binding pocket [chemical binding]; other site 390235009580 putative S-transferase; Provisional; Region: PRK11752 390235009581 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 390235009582 C-terminal domain interface [polypeptide binding]; other site 390235009583 GSH binding site (G-site) [chemical binding]; other site 390235009584 dimer interface [polypeptide binding]; other site 390235009585 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 390235009586 dimer interface [polypeptide binding]; other site 390235009587 N-terminal domain interface [polypeptide binding]; other site 390235009588 active site 390235009589 amidase; Validated; Region: PRK06565 390235009590 Amidase; Region: Amidase; cl11426 390235009591 Amidase; Region: Amidase; cl11426 390235009592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235009593 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 390235009594 putative kissing complex interaction region; other site 390235009595 putative RNA binding sites [nucleotide binding]; other site 390235009596 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 390235009597 ProQ/FINO family; Region: ProQ; pfam04352 390235009598 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 390235009599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235009600 DNA-binding site [nucleotide binding]; DNA binding site 390235009601 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 390235009602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235009603 homodimer interface [polypeptide binding]; other site 390235009604 catalytic residue [active] 390235009605 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235009606 EamA-like transporter family; Region: EamA; pfam00892 390235009607 EamA-like transporter family; Region: EamA; pfam00892 390235009608 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 390235009609 Uncharacterized conserved protein [Function unknown]; Region: COG1359 390235009610 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 390235009611 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 390235009612 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 390235009613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009615 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 390235009616 putative effector binding pocket; other site 390235009617 putative dimerization interface [polypeptide binding]; other site 390235009618 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235009619 cyanate hydratase; Validated; Region: PRK02866 390235009620 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 390235009621 oligomer interface [polypeptide binding]; other site 390235009622 active site 390235009623 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 390235009624 active site clefts [active] 390235009625 zinc binding site [ion binding]; other site 390235009626 dimer interface [polypeptide binding]; other site 390235009627 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 390235009628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009629 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 390235009630 dimerization interface [polypeptide binding]; other site 390235009631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 390235009632 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 390235009633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 390235009634 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 390235009635 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235009636 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235009637 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 390235009638 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235009639 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 390235009640 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235009641 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 390235009642 Uncharacterized conserved protein [Function unknown]; Region: COG2128 390235009643 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 390235009644 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235009645 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 390235009646 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 390235009647 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 390235009648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235009649 DNA-binding site [nucleotide binding]; DNA binding site 390235009650 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 390235009651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235009652 homodimer interface [polypeptide binding]; other site 390235009653 catalytic residue [active] 390235009654 Uncharacterized conserved protein [Function unknown]; Region: COG2128 390235009655 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 390235009656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 390235009657 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235009658 Coenzyme A binding pocket [chemical binding]; other site 390235009659 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 390235009660 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 390235009661 putative ligand binding site [chemical binding]; other site 390235009662 NAD binding site [chemical binding]; other site 390235009663 catalytic site [active] 390235009664 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 390235009665 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 390235009666 putative substrate translocation pore; other site 390235009667 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 390235009668 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 390235009669 dimer interface [polypeptide binding]; other site 390235009670 NADP binding site [chemical binding]; other site 390235009671 catalytic residues [active] 390235009672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009674 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 390235009675 putative dimerization interface [polypeptide binding]; other site 390235009676 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 390235009677 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 390235009678 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 390235009679 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235009680 putative substrate translocation pore; other site 390235009681 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 390235009682 Transcriptional regulators [Transcription]; Region: MarR; COG1846 390235009683 MarR family; Region: MarR_2; pfam12802 390235009684 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235009685 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 390235009686 FMN-binding pocket [chemical binding]; other site 390235009687 flavin binding motif; other site 390235009688 phosphate binding motif [ion binding]; other site 390235009689 beta-alpha-beta structure motif; other site 390235009690 NAD binding pocket [chemical binding]; other site 390235009691 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 390235009692 catalytic loop [active] 390235009693 iron binding site [ion binding]; other site 390235009694 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 390235009695 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 390235009696 iron-sulfur cluster [ion binding]; other site 390235009697 [2Fe-2S] cluster binding site [ion binding]; other site 390235009698 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 390235009699 alpha subunit interface [polypeptide binding]; other site 390235009700 active site 390235009701 substrate binding site [chemical binding]; other site 390235009702 Fe binding site [ion binding]; other site 390235009703 benzoate transport; Region: 2A0115; TIGR00895 390235009704 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 390235009705 putative substrate translocation pore; other site 390235009706 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 390235009707 outer membrane porin, OprD family; Region: OprD; pfam03573 390235009708 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235009709 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 390235009710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009712 LysR substrate binding domain; Region: LysR_substrate; pfam03466 390235009713 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 390235009714 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 390235009715 classical (c) SDRs; Region: SDR_c; cd05233 390235009716 NAD(P) binding site [chemical binding]; other site 390235009717 active site 390235009718 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 390235009719 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235009720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235009722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009723 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 390235009724 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 390235009725 classical (c) SDRs; Region: SDR_c; cd05233 390235009726 NAD(P) binding site [chemical binding]; other site 390235009727 active site 390235009728 Predicted membrane protein [Function unknown]; Region: COG2259 390235009729 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235009730 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 390235009731 putative NAD(P) binding site [chemical binding]; other site 390235009732 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 390235009733 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235009734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235009735 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 390235009736 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235009737 catalytic residue [active] 390235009738 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 390235009739 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 390235009740 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235009741 GAF domain; Region: GAF; pfam01590 390235009742 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235009743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235009744 metal binding site [ion binding]; metal-binding site 390235009745 active site 390235009746 I-site; other site 390235009747 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 390235009748 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 390235009749 active site 390235009750 putative substrate binding pocket [chemical binding]; other site 390235009751 xanthine permease; Region: pbuX; TIGR03173 390235009752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009754 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 390235009755 dimerization interface [polypeptide binding]; other site 390235009756 Predicted transporter component [General function prediction only]; Region: COG2391 390235009757 Sulphur transport; Region: Sulf_transp; pfam04143 390235009758 Predicted transporter component [General function prediction only]; Region: COG2391 390235009759 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 390235009760 Beta-lactamase; Region: Beta-lactamase; pfam00144 390235009761 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 390235009762 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 390235009763 active site 390235009764 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 390235009765 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 390235009766 putative active site [active] 390235009767 metal binding site [ion binding]; metal-binding site 390235009768 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 390235009769 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 390235009770 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235009771 active site 390235009772 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235009773 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 390235009774 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235009775 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235009776 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235009777 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009779 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 390235009780 dimerization interface [polypeptide binding]; other site 390235009781 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 390235009782 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 390235009783 SCP-2 sterol transfer family; Region: SCP2; pfam02036 390235009784 Domain of unknown function (DUF202); Region: DUF202; cl09954 390235009785 Domain of unknown function (DUF202); Region: DUF202; cl09954 390235009786 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 390235009787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009789 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 390235009790 dimerization interface [polypeptide binding]; other site 390235009791 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 390235009792 D-galactonate transporter; Region: 2A0114; TIGR00893 390235009793 putative substrate translocation pore; other site 390235009794 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235009795 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 390235009796 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 390235009797 active site 390235009798 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 390235009799 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235009800 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 390235009801 acyl-activating enzyme (AAE) consensus motif; other site 390235009802 putative AMP binding site [chemical binding]; other site 390235009803 putative active site [active] 390235009804 putative CoA binding site [chemical binding]; other site 390235009805 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 390235009806 outer membrane porin, OprD family; Region: OprD; pfam03573 390235009807 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 390235009808 Citrate transporter; Region: CitMHS; pfam03600 390235009809 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 390235009810 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235009811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 390235009812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009814 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 390235009815 putative dimerization interface [polypeptide binding]; other site 390235009816 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 390235009817 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 390235009818 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 390235009819 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235009820 hydroxyglutarate oxidase; Provisional; Region: PRK11728 390235009821 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 390235009822 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 390235009823 putative substrate translocation pore; other site 390235009824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009826 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_6; cd08475 390235009827 putative effector binding pocket; other site 390235009828 putative dimerization interface [polypeptide binding]; other site 390235009829 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 390235009830 DNA binding residues [nucleotide binding] 390235009831 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 390235009832 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 390235009833 PAS domain; Region: PAS_9; pfam13426 390235009834 putative active site [active] 390235009835 heme pocket [chemical binding]; other site 390235009836 SnoaL-like domain; Region: SnoaL_2; pfam12680 390235009837 short chain dehydrogenase; Provisional; Region: PRK06101 390235009838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235009839 NAD(P) binding site [chemical binding]; other site 390235009840 active site 390235009841 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 390235009842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235009843 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 390235009844 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 390235009845 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 390235009846 S-adenosylmethionine binding site [chemical binding]; other site 390235009847 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 390235009848 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 390235009849 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 390235009850 D-galactonate transporter; Region: 2A0114; TIGR00893 390235009851 putative substrate translocation pore; other site 390235009852 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 390235009853 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 390235009854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009855 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 390235009856 putative dimerization interface [polypeptide binding]; other site 390235009857 serine/threonine transporter SstT; Provisional; Region: PRK13628 390235009858 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235009859 Protein of unknown function, DUF480; Region: DUF480; pfam04337 390235009860 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 390235009861 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 390235009862 catalytic residue [active] 390235009863 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 390235009864 catalytic residues [active] 390235009865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235009866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235009867 peroxiredoxin; Region: AhpC; TIGR03137 390235009868 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 390235009869 dimer interface [polypeptide binding]; other site 390235009870 decamer (pentamer of dimers) interface [polypeptide binding]; other site 390235009871 catalytic triad [active] 390235009872 peroxidatic and resolving cysteines [active] 390235009873 glutathione reductase; Validated; Region: PRK06116 390235009874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235009875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235009876 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235009877 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 390235009878 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 390235009879 active site 390235009880 tetramer interface; other site 390235009881 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 390235009882 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 390235009883 NAD binding site [chemical binding]; other site 390235009884 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 390235009885 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 390235009886 Cytochrome c [Energy production and conversion]; Region: COG3258 390235009887 Cytochrome c; Region: Cytochrom_C; pfam00034 390235009888 Cytochrome c553 [Energy production and conversion]; Region: COG2863 390235009889 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235009890 Cytochrome c; Region: Cytochrom_C; cl11414 390235009891 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 390235009892 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 390235009893 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 390235009894 FMN binding site [chemical binding]; other site 390235009895 substrate binding site [chemical binding]; other site 390235009896 putative catalytic residue [active] 390235009897 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 390235009898 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235009899 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 390235009900 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 390235009901 dimer interface [polypeptide binding]; other site 390235009902 conserved gate region; other site 390235009903 putative PBP binding loops; other site 390235009904 ABC-ATPase subunit interface; other site 390235009905 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235009906 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 390235009907 Walker A/P-loop; other site 390235009908 ATP binding site [chemical binding]; other site 390235009909 Q-loop/lid; other site 390235009910 ABC transporter signature motif; other site 390235009911 Walker B; other site 390235009912 D-loop; other site 390235009913 H-loop/switch region; other site 390235009914 TOBE domain; Region: TOBE; cl01440 390235009915 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 390235009916 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 390235009917 active site 390235009918 DNA binding site [nucleotide binding] 390235009919 Int/Topo IB signature motif; other site 390235009920 catalytic residues [active] 390235009921 carbon storage regulator; Provisional; Region: PRK01712 390235009922 Response regulator receiver domain; Region: Response_reg; pfam00072 390235009923 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 390235009924 active site 390235009925 phosphorylation site [posttranslational modification] 390235009926 intermolecular recognition site; other site 390235009927 dimerization interface [polypeptide binding]; other site 390235009928 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 390235009929 circadian clock protein KaiC; Reviewed; Region: PRK09302 390235009930 Walker A motif; other site 390235009931 ATP binding site [chemical binding]; other site 390235009932 Walker B motif; other site 390235009933 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 390235009934 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 390235009935 Walker A motif; other site 390235009936 Walker A motif; other site 390235009937 ATP binding site [chemical binding]; other site 390235009938 Walker B motif; other site 390235009939 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 390235009940 PAS domain; Region: PAS_9; pfam13426 390235009941 putative active site [active] 390235009942 heme pocket [chemical binding]; other site 390235009943 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 390235009944 dimer interface [polypeptide binding]; other site 390235009945 phosphorylation site [posttranslational modification] 390235009946 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 390235009947 ATP binding site [chemical binding]; other site 390235009948 Mg2+ binding site [ion binding]; other site 390235009949 G-X-G motif; other site 390235009950 Predicted membrane protein [Function unknown]; Region: COG2259 390235009951 Alginate lyase; Region: Alginate_lyase2; pfam08787 390235009952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 390235009953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235009955 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 390235009956 dimerization interface [polypeptide binding]; other site 390235009957 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 390235009958 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235009959 putative NAD(P) binding site [chemical binding]; other site 390235009960 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 390235009961 putative inner membrane peptidase; Provisional; Region: PRK11778 390235009962 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 390235009963 tandem repeat interface [polypeptide binding]; other site 390235009964 oligomer interface [polypeptide binding]; other site 390235009965 active site residues [active] 390235009966 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 390235009967 catalytic core [active] 390235009968 SCP-2 sterol transfer family; Region: SCP2; pfam02036 390235009969 Phosphotransferase enzyme family; Region: APH; pfam01636 390235009970 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 390235009971 putative active site [active] 390235009972 putative substrate binding site [chemical binding]; other site 390235009973 ATP binding site [chemical binding]; other site 390235009974 short chain dehydrogenase; Provisional; Region: PRK07035 390235009975 classical (c) SDRs; Region: SDR_c; cd05233 390235009976 NAD(P) binding site [chemical binding]; other site 390235009977 active site 390235009978 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 390235009979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235009980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235009981 metal binding site [ion binding]; metal-binding site 390235009982 active site 390235009983 I-site; other site 390235009984 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 390235009985 Citrate transporter; Region: CitMHS; pfam03600 390235009986 transmembrane helices; other site 390235009987 TrkA-C domain; Region: TrkA_C; pfam02080 390235009988 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 390235009989 TrkA-C domain; Region: TrkA_C; pfam02080 390235009990 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 390235009991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235009992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235009993 metal binding site [ion binding]; metal-binding site 390235009994 active site 390235009995 I-site; other site 390235009996 hypothetical protein; Provisional; Region: PRK10621 390235009997 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 390235009998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235009999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235010000 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 390235010001 putative effector binding pocket; other site 390235010002 dimerization interface [polypeptide binding]; other site 390235010003 cytosine deaminase; Provisional; Region: PRK05985 390235010004 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 390235010005 active site 390235010006 hypothetical protein; Provisional; Region: PRK09256 390235010007 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 390235010008 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 390235010009 PAS domain; Region: PAS_9; pfam13426 390235010010 putative active site [active] 390235010011 heme pocket [chemical binding]; other site 390235010012 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 390235010013 PAS domain; Region: PAS_9; pfam13426 390235010014 putative active site [active] 390235010015 heme pocket [chemical binding]; other site 390235010016 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 390235010017 PAS domain; Region: PAS_9; pfam13426 390235010018 putative active site [active] 390235010019 heme pocket [chemical binding]; other site 390235010020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235010021 putative CheW interface [polypeptide binding]; other site 390235010022 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235010023 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 390235010024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235010025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235010026 metal binding site [ion binding]; metal-binding site 390235010027 active site 390235010028 I-site; other site 390235010029 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 390235010030 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 390235010031 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235010032 putative NAD(P) binding site [chemical binding]; other site 390235010033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235010034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235010035 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 390235010036 putative effector binding pocket; other site 390235010037 dimerization interface [polypeptide binding]; other site 390235010038 Cupin; Region: Cupin_6; pfam12852 390235010039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010040 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235010041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010042 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 390235010043 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 390235010044 GSH binding site [chemical binding]; other site 390235010045 catalytic residues [active] 390235010046 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 390235010047 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235010048 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235010049 ligand binding site [chemical binding]; other site 390235010050 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 390235010051 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 390235010052 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 390235010053 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 390235010054 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 390235010055 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 390235010056 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 390235010057 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 390235010058 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 390235010059 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 390235010060 PAAR motif; Region: PAAR_motif; pfam05488 390235010061 PAAR motif; Region: PAAR_motif; pfam05488 390235010062 Sister chromatid cohesion C-terminus; Region: Nipped-B_C; pfam12830 390235010063 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 390235010064 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 390235010065 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 390235010066 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 390235010067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 390235010068 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 390235010069 Clp amino terminal domain; Region: Clp_N; pfam02861 390235010070 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 390235010071 Walker A motif; other site 390235010072 ATP binding site [chemical binding]; other site 390235010073 Walker B motif; other site 390235010074 arginine finger; other site 390235010075 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 390235010076 Walker A motif; other site 390235010077 ATP binding site [chemical binding]; other site 390235010078 Walker B motif; other site 390235010079 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 390235010080 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 390235010081 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235010082 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235010083 ligand binding site [chemical binding]; other site 390235010084 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 390235010085 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 390235010086 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 390235010087 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 390235010088 Protein of unknown function (DUF877); Region: DUF877; pfam05943 390235010089 Protein of unknown function (DUF770); Region: DUF770; pfam05591 390235010090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 390235010091 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 390235010092 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 390235010093 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 390235010094 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 390235010095 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 390235010096 active site 390235010097 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 390235010098 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235010099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235010100 Walker A/P-loop; other site 390235010101 ATP binding site [chemical binding]; other site 390235010102 Q-loop/lid; other site 390235010103 ABC transporter signature motif; other site 390235010104 Walker B; other site 390235010105 D-loop; other site 390235010106 H-loop/switch region; other site 390235010107 TOBE domain; Region: TOBE_2; pfam08402 390235010108 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235010109 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 390235010110 dimer interface [polypeptide binding]; other site 390235010111 conserved gate region; other site 390235010112 putative PBP binding loops; other site 390235010113 ABC-ATPase subunit interface; other site 390235010114 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 390235010115 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 390235010116 dimer interface [polypeptide binding]; other site 390235010117 conserved gate region; other site 390235010118 putative PBP binding loops; other site 390235010119 ABC-ATPase subunit interface; other site 390235010120 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 390235010121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235010122 Creatinine amidohydrolase; Region: Creatininase; pfam02633 390235010123 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 390235010124 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235010125 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235010126 conserved cys residue [active] 390235010127 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010128 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 390235010129 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 390235010130 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235010131 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235010132 dimer interface [polypeptide binding]; other site 390235010133 putative CheW interface [polypeptide binding]; other site 390235010134 BCCT family transporter; Region: BCCT; cl00569 390235010135 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 390235010136 outer membrane porin, OprD family; Region: OprD; pfam03573 390235010137 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 390235010138 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 390235010139 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 390235010140 P-loop; other site 390235010141 Magnesium ion binding site [ion binding]; other site 390235010142 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 390235010143 Magnesium ion binding site [ion binding]; other site 390235010144 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 390235010145 ParB-like nuclease domain; Region: ParBc; pfam02195 390235010146 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 390235010147 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 390235010148 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 390235010149 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 390235010150 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 390235010151 dimer interface [polypeptide binding]; other site 390235010152 ssDNA binding site [nucleotide binding]; other site 390235010153 tetramer (dimer of dimers) interface [polypeptide binding]; other site 390235010154 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 390235010155 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 390235010156 non-specific DNA binding site [nucleotide binding]; other site 390235010157 salt bridge; other site 390235010158 sequence-specific DNA binding site [nucleotide binding]; other site 390235010159 DNA topoisomerase III; Provisional; Region: PRK07726 390235010160 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 390235010161 active site 390235010162 putative interdomain interaction site [polypeptide binding]; other site 390235010163 putative metal-binding site [ion binding]; other site 390235010164 putative nucleotide binding site [chemical binding]; other site 390235010165 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 390235010166 domain I; other site 390235010167 DNA binding groove [nucleotide binding] 390235010168 phosphate binding site [ion binding]; other site 390235010169 domain II; other site 390235010170 domain III; other site 390235010171 nucleotide binding site [chemical binding]; other site 390235010172 catalytic site [active] 390235010173 domain IV; other site 390235010174 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 390235010175 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 390235010176 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 390235010177 MPN+ (JAMM) motif; other site 390235010178 Zinc-binding site [ion binding]; other site 390235010179 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 390235010180 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 390235010181 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 390235010182 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 390235010183 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 390235010184 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 390235010185 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 390235010186 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 390235010187 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 390235010188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 390235010189 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 390235010190 dimer interface [polypeptide binding]; other site 390235010191 phosphorylation site [posttranslational modification] 390235010192 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 390235010193 ATP binding site [chemical binding]; other site 390235010194 Mg2+ binding site [ion binding]; other site 390235010195 G-X-G motif; other site 390235010196 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 390235010197 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 390235010198 active site 390235010199 phosphorylation site [posttranslational modification] 390235010200 intermolecular recognition site; other site 390235010201 dimerization interface [polypeptide binding]; other site 390235010202 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 390235010203 DNA binding site [nucleotide binding] 390235010204 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 390235010205 TPR motif; other site 390235010206 binding surface 390235010207 short chain dehydrogenase; Provisional; Region: PRK09072 390235010208 classical (c) SDRs; Region: SDR_c; cd05233 390235010209 NAD(P) binding site [chemical binding]; other site 390235010210 active site 390235010211 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 390235010212 heme binding pocket [chemical binding]; other site 390235010213 heme ligand [chemical binding]; other site 390235010214 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 390235010215 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 390235010216 acyl-activating enzyme (AAE) consensus motif; other site 390235010217 putative AMP binding site [chemical binding]; other site 390235010218 putative active site [active] 390235010219 putative CoA binding site [chemical binding]; other site 390235010220 Thermostable hemolysin; Region: T_hemolysin; pfam12261 390235010221 Transposase, Mutator family; Region: Transposase_mut; pfam00872 390235010222 MULE transposase domain; Region: MULE; pfam10551 390235010223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 390235010224 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 390235010225 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 390235010226 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235010227 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235010228 conserved cys residue [active] 390235010229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010231 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 390235010232 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 390235010233 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 390235010234 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 390235010235 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 390235010236 benzoate transport; Region: 2A0115; TIGR00895 390235010237 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 390235010238 putative substrate translocation pore; other site 390235010239 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 390235010240 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 390235010241 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 390235010242 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 390235010243 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 390235010244 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 390235010245 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 390235010246 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 390235010247 Protein of unknown function (DUF904); Region: DUF904; pfam06005 390235010248 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 390235010249 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 390235010250 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 390235010251 Protein of unknown function (DUF327); Region: DUF327; cl00753 390235010252 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 390235010253 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 390235010254 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 390235010255 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 390235010256 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 390235010257 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 390235010258 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 390235010259 Putative helicase; Region: TraI_2; pfam07514 390235010260 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 390235010261 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 390235010262 outer membrane porin, OprD family; Region: OprD; pfam03573 390235010263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235010264 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 390235010265 NAD(P) binding site [chemical binding]; other site 390235010266 active site 390235010267 enoyl-CoA hydratase; Provisional; Region: PRK08138 390235010268 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 390235010269 substrate binding site [chemical binding]; other site 390235010270 oxyanion hole (OAH) forming residues; other site 390235010271 trimer interface [polypeptide binding]; other site 390235010272 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 390235010273 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 390235010274 dimer interface [polypeptide binding]; other site 390235010275 active site 390235010276 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 390235010277 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 390235010278 dimer interface [polypeptide binding]; other site 390235010279 acyl-activating enzyme (AAE) consensus motif; other site 390235010280 putative active site [active] 390235010281 AMP binding site [chemical binding]; other site 390235010282 putative CoA binding site [chemical binding]; other site 390235010283 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 390235010284 CoA-transferase family III; Region: CoA_transf_3; pfam02515 390235010285 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235010286 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235010287 active site 390235010288 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235010289 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235010291 NAD(P) binding site [chemical binding]; other site 390235010292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235010293 active site 390235010294 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235010295 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 390235010296 SurA N-terminal domain; Region: SurA_N; pfam09312 390235010297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010298 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 390235010299 putative FMN binding site [chemical binding]; other site 390235010300 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 390235010301 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235010302 active site 390235010303 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235010304 Transposase domain (DUF772); Region: DUF772; pfam05598 390235010305 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 390235010306 DDE superfamily endonuclease; Region: DDE_4; cl17710 390235010307 TIR domain; Region: TIR_2; cl17458 390235010308 TIR domain; Region: TIR_2; pfam13676 390235010309 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 390235010310 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 390235010311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235010312 Walker A/P-loop; other site 390235010313 ATP binding site [chemical binding]; other site 390235010314 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 390235010315 septum site-determining protein MinC; Region: minC; TIGR01222 390235010316 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 390235010317 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 390235010318 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 390235010319 integrase; Provisional; Region: PRK09692 390235010320 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 390235010321 active site 390235010322 Int/Topo IB signature motif; other site 390235010323 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 390235010324 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 390235010325 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 390235010326 GIY-YIG motif/motif A; other site 390235010327 active site 390235010328 catalytic site [active] 390235010329 putative DNA binding site [nucleotide binding]; other site 390235010330 metal binding site [ion binding]; metal-binding site 390235010331 UvrB/uvrC motif; Region: UVR; pfam02151 390235010332 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 390235010333 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 390235010334 DNA binding site [nucleotide binding] 390235010335 response regulator; Provisional; Region: PRK09483 390235010336 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 390235010337 active site 390235010338 phosphorylation site [posttranslational modification] 390235010339 intermolecular recognition site; other site 390235010340 dimerization interface [polypeptide binding]; other site 390235010341 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 390235010342 DNA binding residues [nucleotide binding] 390235010343 dimerization interface [polypeptide binding]; other site 390235010344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235010345 Coenzyme A binding pocket [chemical binding]; other site 390235010346 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 390235010347 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 390235010348 C-terminal domain interface [polypeptide binding]; other site 390235010349 GSH binding site (G-site) [chemical binding]; other site 390235010350 dimer interface [polypeptide binding]; other site 390235010351 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 390235010352 dimer interface [polypeptide binding]; other site 390235010353 N-terminal domain interface [polypeptide binding]; other site 390235010354 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 390235010355 CoenzymeA binding site [chemical binding]; other site 390235010356 subunit interaction site [polypeptide binding]; other site 390235010357 PHB binding site; other site 390235010358 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 390235010359 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235010360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235010361 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 390235010362 dimerization interface [polypeptide binding]; other site 390235010363 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 390235010364 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 390235010365 inhibitor-cofactor binding pocket; inhibition site 390235010366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235010367 catalytic residue [active] 390235010368 elongation factor G; Reviewed; Region: PRK00007 390235010369 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 390235010370 G1 box; other site 390235010371 putative GEF interaction site [polypeptide binding]; other site 390235010372 GTP/Mg2+ binding site [chemical binding]; other site 390235010373 Switch I region; other site 390235010374 G2 box; other site 390235010375 G3 box; other site 390235010376 Switch II region; other site 390235010377 G4 box; other site 390235010378 G5 box; other site 390235010379 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 390235010380 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 390235010381 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 390235010382 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 390235010383 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 390235010384 Sulfate transporter family; Region: Sulfate_transp; pfam00916 390235010385 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 390235010386 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235010387 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235010388 isocitrate lyase; Provisional; Region: PRK15063 390235010389 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 390235010390 tetramer interface [polypeptide binding]; other site 390235010391 active site 390235010392 Mg2+/Mn2+ binding site [ion binding]; other site 390235010393 OPT oligopeptide transporter protein; Region: OPT; cl14607 390235010394 OPT oligopeptide transporter protein; Region: OPT; pfam03169 390235010395 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235010396 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235010397 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 390235010398 YccA-like proteins; Region: YccA_like; cd10433 390235010399 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 390235010400 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 390235010401 sulfur relay protein TusC; Validated; Region: PRK00211 390235010402 DsrH like protein; Region: DsrH; cl17347 390235010403 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 390235010404 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 390235010405 hypothetical protein; Validated; Region: PRK09071 390235010406 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 390235010407 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 390235010408 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 390235010409 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 390235010410 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 390235010411 putative dimer interface [polypeptide binding]; other site 390235010412 N-terminal domain interface [polypeptide binding]; other site 390235010413 putative substrate binding pocket (H-site) [chemical binding]; other site 390235010414 siroheme synthase; Provisional; Region: cysG; PRK10637 390235010415 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 390235010416 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 390235010417 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 390235010418 active site 390235010419 SAM binding site [chemical binding]; other site 390235010420 homodimer interface [polypeptide binding]; other site 390235010421 seryl-tRNA synthetase; Provisional; Region: PRK05431 390235010422 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 390235010423 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 390235010424 dimer interface [polypeptide binding]; other site 390235010425 active site 390235010426 motif 1; other site 390235010427 motif 2; other site 390235010428 motif 3; other site 390235010429 CrcB-like protein; Region: CRCB; cl09114 390235010430 recombination factor protein RarA; Reviewed; Region: PRK13342 390235010431 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 390235010432 Walker A motif; other site 390235010433 ATP binding site [chemical binding]; other site 390235010434 Walker B motif; other site 390235010435 arginine finger; other site 390235010436 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 390235010437 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 390235010438 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 390235010439 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 390235010440 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 390235010441 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 390235010442 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 390235010443 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 390235010444 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 390235010445 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 390235010446 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 390235010447 rRNA binding site [nucleotide binding]; other site 390235010448 predicted 30S ribosome binding site; other site 390235010449 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 390235010450 Clp amino terminal domain; Region: Clp_N; pfam02861 390235010451 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 390235010452 Walker A motif; other site 390235010453 ATP binding site [chemical binding]; other site 390235010454 Walker B motif; other site 390235010455 arginine finger; other site 390235010456 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 390235010457 Walker A motif; other site 390235010458 ATP binding site [chemical binding]; other site 390235010459 Walker B motif; other site 390235010460 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 390235010461 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 390235010462 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 390235010463 DNA-binding site [nucleotide binding]; DNA binding site 390235010464 RNA-binding motif; other site 390235010465 isocitrate dehydrogenase; Validated; Region: PRK07362 390235010466 isocitrate dehydrogenase; Reviewed; Region: PRK07006 390235010467 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 390235010468 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 390235010469 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 390235010470 nudix motif; other site 390235010471 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 390235010472 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 390235010473 putative lysogenization regulator; Reviewed; Region: PRK00218 390235010474 adenylosuccinate lyase; Provisional; Region: PRK09285 390235010475 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 390235010476 tetramer interface [polypeptide binding]; other site 390235010477 active site 390235010478 Uncharacterized conserved protein [Function unknown]; Region: COG2850 390235010479 Cupin domain; Region: Cupin_2; cl17218 390235010480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235010481 Coenzyme A binding pocket [chemical binding]; other site 390235010482 DNA topoisomerase III; Provisional; Region: PRK07726 390235010483 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 390235010484 active site 390235010485 putative interdomain interaction site [polypeptide binding]; other site 390235010486 putative metal-binding site [ion binding]; other site 390235010487 putative nucleotide binding site [chemical binding]; other site 390235010488 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 390235010489 domain I; other site 390235010490 DNA binding groove [nucleotide binding] 390235010491 phosphate binding site [ion binding]; other site 390235010492 domain II; other site 390235010493 domain III; other site 390235010494 nucleotide binding site [chemical binding]; other site 390235010495 catalytic site [active] 390235010496 domain IV; other site 390235010497 DinB family; Region: DinB; cl17821 390235010498 DinB superfamily; Region: DinB_2; pfam12867 390235010499 Predicted ATPase [General function prediction only]; Region: COG1485 390235010500 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 390235010501 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 390235010502 Water Stress and Hypersensitive response; Region: WHy; smart00769 390235010503 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 390235010504 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 390235010505 active site 390235010506 dinuclear metal binding site [ion binding]; other site 390235010507 dimerization interface [polypeptide binding]; other site 390235010508 universal stress protein UspE; Provisional; Region: PRK11175 390235010509 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 390235010510 Ligand Binding Site [chemical binding]; other site 390235010511 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 390235010512 Ligand Binding Site [chemical binding]; other site 390235010513 threonine and homoserine efflux system; Provisional; Region: PRK10532 390235010514 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 390235010515 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 390235010516 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 390235010517 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 390235010518 active site 390235010519 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 390235010520 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 390235010521 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 390235010522 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 390235010523 DNA binding residues [nucleotide binding] 390235010524 dimer interface [polypeptide binding]; other site 390235010525 [2Fe-2S] cluster binding site [ion binding]; other site 390235010526 Isochorismatase family; Region: Isochorismatase; pfam00857 390235010527 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 390235010528 catalytic triad [active] 390235010529 conserved cis-peptide bond; other site 390235010530 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 390235010531 non-specific DNA binding site [nucleotide binding]; other site 390235010532 salt bridge; other site 390235010533 sequence-specific DNA binding site [nucleotide binding]; other site 390235010534 Cupin domain; Region: Cupin_2; pfam07883 390235010535 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235010536 EamA-like transporter family; Region: EamA; pfam00892 390235010537 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 390235010538 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 390235010539 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 390235010540 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 390235010541 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 390235010542 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 390235010543 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 390235010544 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 390235010545 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 390235010546 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 390235010547 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 390235010548 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 390235010549 enoyl-CoA hydratase; Provisional; Region: PRK05862 390235010550 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 390235010551 substrate binding site [chemical binding]; other site 390235010552 oxyanion hole (OAH) forming residues; other site 390235010553 trimer interface [polypeptide binding]; other site 390235010554 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235010555 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 390235010556 FAD binding site [chemical binding]; other site 390235010557 homotetramer interface [polypeptide binding]; other site 390235010558 substrate binding pocket [chemical binding]; other site 390235010559 catalytic base [active] 390235010560 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 390235010561 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 390235010562 dimer interface [polypeptide binding]; other site 390235010563 active site 390235010564 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 390235010565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235010566 NAD(P) binding site [chemical binding]; other site 390235010567 active site 390235010568 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 390235010569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235010570 acyl-activating enzyme (AAE) consensus motif; other site 390235010571 AMP binding site [chemical binding]; other site 390235010572 active site 390235010573 CoA binding site [chemical binding]; other site 390235010574 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235010575 SurA N-terminal domain; Region: SurA_N; pfam09312 390235010576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235010577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235010578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235010579 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 390235010580 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 390235010581 dimerization interface [polypeptide binding]; other site 390235010582 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 390235010583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235010584 catalytic residue [active] 390235010585 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 390235010586 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 390235010587 motif II; other site 390235010588 Predicted flavoprotein [General function prediction only]; Region: COG0431 390235010589 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235010590 arginine decarboxylase; Provisional; Region: PRK15029 390235010591 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 390235010592 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 390235010593 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235010594 catalytic residue [active] 390235010595 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 390235010596 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 390235010597 active site 390235010598 catalytic site [active] 390235010599 substrate binding site [chemical binding]; other site 390235010600 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 390235010601 RNA/DNA hybrid binding site [nucleotide binding]; other site 390235010602 active site 390235010603 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235010604 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 390235010605 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 390235010606 MltD lipid attachment motif; Region: MLTD_N; pfam06474 390235010607 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 390235010608 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 390235010609 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235010610 catalytic residue [active] 390235010611 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235010612 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235010613 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 390235010614 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 390235010615 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 390235010616 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 390235010617 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 390235010618 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 390235010619 dimer interface [polypeptide binding]; other site 390235010620 conserved gate region; other site 390235010621 putative PBP binding loops; other site 390235010622 ABC-ATPase subunit interface; other site 390235010623 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 390235010624 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 390235010625 dimer interface [polypeptide binding]; other site 390235010626 conserved gate region; other site 390235010627 putative PBP binding loops; other site 390235010628 ABC-ATPase subunit interface; other site 390235010629 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 390235010630 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235010631 Walker A/P-loop; other site 390235010632 ATP binding site [chemical binding]; other site 390235010633 Q-loop/lid; other site 390235010634 ABC transporter signature motif; other site 390235010635 Walker B; other site 390235010636 D-loop; other site 390235010637 H-loop/switch region; other site 390235010638 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 390235010639 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235010640 Walker A/P-loop; other site 390235010641 ATP binding site [chemical binding]; other site 390235010642 Q-loop/lid; other site 390235010643 ABC transporter signature motif; other site 390235010644 Walker B; other site 390235010645 D-loop; other site 390235010646 H-loop/switch region; other site 390235010647 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 390235010648 RNA polymerase sigma factor; Provisional; Region: PRK12528 390235010649 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235010650 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 390235010651 DNA binding residues [nucleotide binding] 390235010652 fec operon regulator FecR; Reviewed; Region: PRK09774 390235010653 FecR protein; Region: FecR; pfam04773 390235010654 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235010655 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 390235010656 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 390235010657 N-terminal plug; other site 390235010658 ligand-binding site [chemical binding]; other site 390235010659 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 390235010660 putative substrate translocation pore; other site 390235010661 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235010662 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 390235010663 PAS domain; Region: PAS_9; pfam13426 390235010664 putative active site [active] 390235010665 heme pocket [chemical binding]; other site 390235010666 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 390235010667 PAS domain; Region: PAS_9; pfam13426 390235010668 putative active site [active] 390235010669 heme pocket [chemical binding]; other site 390235010670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235010671 dimer interface [polypeptide binding]; other site 390235010672 putative CheW interface [polypeptide binding]; other site 390235010673 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235010674 GAF domain; Region: GAF; pfam01590 390235010675 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235010676 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 390235010677 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 390235010678 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 390235010679 active site 390235010680 phosphorylation site [posttranslational modification] 390235010681 intermolecular recognition site; other site 390235010682 dimerization interface [polypeptide binding]; other site 390235010683 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 390235010684 DNA binding site [nucleotide binding] 390235010685 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 390235010686 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 390235010687 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 390235010688 Ligand Binding Site [chemical binding]; other site 390235010689 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 390235010690 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 390235010691 dimer interface [polypeptide binding]; other site 390235010692 phosphorylation site [posttranslational modification] 390235010693 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 390235010694 ATP binding site [chemical binding]; other site 390235010695 Mg2+ binding site [ion binding]; other site 390235010696 G-X-G motif; other site 390235010697 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 390235010698 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 390235010699 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235010700 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 390235010701 Soluble P-type ATPase [General function prediction only]; Region: COG4087 390235010702 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 390235010703 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 390235010704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235010705 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235010706 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 390235010707 catalytic core [active] 390235010708 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 390235010709 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 390235010710 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 390235010711 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 390235010712 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 390235010713 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 390235010714 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 390235010715 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 390235010716 dimerization interface [polypeptide binding]; other site 390235010717 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 390235010718 dimer interface [polypeptide binding]; other site 390235010719 phosphorylation site [posttranslational modification] 390235010720 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 390235010721 ATP binding site [chemical binding]; other site 390235010722 Mg2+ binding site [ion binding]; other site 390235010723 G-X-G motif; other site 390235010724 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 390235010725 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 390235010726 active site 390235010727 phosphorylation site [posttranslational modification] 390235010728 intermolecular recognition site; other site 390235010729 dimerization interface [polypeptide binding]; other site 390235010730 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 390235010731 active site 1 [active] 390235010732 dimer interface [polypeptide binding]; other site 390235010733 active site 2 [active] 390235010734 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 390235010735 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 390235010736 dimer interface [polypeptide binding]; other site 390235010737 active site 390235010738 Amidohydrolase; Region: Amidohydro_2; pfam04909 390235010739 Pirin-related protein [General function prediction only]; Region: COG1741 390235010740 Pirin; Region: Pirin; pfam02678 390235010741 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 390235010742 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 390235010743 heat shock protein 90; Provisional; Region: PRK05218 390235010744 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 390235010745 ATP binding site [chemical binding]; other site 390235010746 Mg2+ binding site [ion binding]; other site 390235010747 G-X-G motif; other site 390235010748 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 390235010749 CoenzymeA binding site [chemical binding]; other site 390235010750 subunit interaction site [polypeptide binding]; other site 390235010751 PHB binding site; other site 390235010752 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 390235010753 CoenzymeA binding site [chemical binding]; other site 390235010754 subunit interaction site [polypeptide binding]; other site 390235010755 PHB binding site; other site 390235010756 Predicted membrane protein [Function unknown]; Region: COG3821 390235010757 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 390235010758 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 390235010759 CoA binding domain; Region: CoA_binding; pfam02629 390235010760 CoA-ligase; Region: Ligase_CoA; pfam00549 390235010761 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 390235010762 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 390235010763 CoA-ligase; Region: Ligase_CoA; pfam00549 390235010764 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 390235010765 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 390235010766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235010767 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235010768 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 390235010769 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 390235010770 E3 interaction surface; other site 390235010771 lipoyl attachment site [posttranslational modification]; other site 390235010772 e3 binding domain; Region: E3_binding; pfam02817 390235010773 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 390235010774 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 390235010775 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 390235010776 TPP-binding site [chemical binding]; other site 390235010777 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 390235010778 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 390235010779 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 390235010780 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 390235010781 L-aspartate oxidase; Provisional; Region: PRK06175 390235010782 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 390235010783 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 390235010784 SdhC subunit interface [polypeptide binding]; other site 390235010785 proximal heme binding site [chemical binding]; other site 390235010786 cardiolipin binding site; other site 390235010787 Iron-sulfur protein interface; other site 390235010788 proximal quinone binding site [chemical binding]; other site 390235010789 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 390235010790 Iron-sulfur protein interface; other site 390235010791 proximal quinone binding site [chemical binding]; other site 390235010792 SdhD (CybS) interface [polypeptide binding]; other site 390235010793 proximal heme binding site [chemical binding]; other site 390235010794 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 390235010795 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 390235010796 dimer interface [polypeptide binding]; other site 390235010797 active site 390235010798 citrylCoA binding site [chemical binding]; other site 390235010799 NADH binding [chemical binding]; other site 390235010800 cationic pore residues; other site 390235010801 oxalacetate/citrate binding site [chemical binding]; other site 390235010802 coenzyme A binding site [chemical binding]; other site 390235010803 catalytic triad [active] 390235010804 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 390235010805 putative lipid binding site [chemical binding]; other site 390235010806 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 390235010807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235010808 DNA-binding site [nucleotide binding]; DNA binding site 390235010809 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 390235010810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235010811 homodimer interface [polypeptide binding]; other site 390235010812 catalytic residue [active] 390235010813 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235010814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235010815 ligand binding site [chemical binding]; other site 390235010816 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 390235010817 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235010818 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 390235010819 substrate binding pocket [chemical binding]; other site 390235010820 membrane-bound complex binding site; other site 390235010821 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 390235010822 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 390235010823 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 390235010824 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 390235010825 Ligand binding site [chemical binding]; other site 390235010826 Electron transfer flavoprotein domain; Region: ETF; pfam01012 390235010827 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 390235010828 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235010829 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 390235010830 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 390235010831 toxin interface [polypeptide binding]; other site 390235010832 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 390235010833 Zn binding site [ion binding]; other site 390235010834 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 390235010835 non-specific DNA binding site [nucleotide binding]; other site 390235010836 salt bridge; other site 390235010837 sequence-specific DNA binding site [nucleotide binding]; other site 390235010838 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 390235010839 peptide binding site [polypeptide binding]; other site 390235010840 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235010841 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 390235010842 RNA polymerase sigma factor; Reviewed; Region: PRK12527 390235010843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235010844 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 390235010845 DNA binding residues [nucleotide binding] 390235010846 macrolide transporter subunit MacA; Provisional; Region: PRK11578 390235010847 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235010848 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235010849 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 390235010850 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 390235010851 Walker A/P-loop; other site 390235010852 ATP binding site [chemical binding]; other site 390235010853 Q-loop/lid; other site 390235010854 ABC transporter signature motif; other site 390235010855 Walker B; other site 390235010856 D-loop; other site 390235010857 H-loop/switch region; other site 390235010858 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 390235010859 FtsX-like permease family; Region: FtsX; pfam02687 390235010860 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235010861 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 390235010862 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 390235010863 active site 390235010864 dimer interface [polypeptide binding]; other site 390235010865 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 390235010866 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 390235010867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235010868 catalytic residue [active] 390235010869 Uncharacterized conserved protein [Function unknown]; Region: COG1262 390235010870 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 390235010871 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 390235010872 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235010873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235010874 Walker A/P-loop; other site 390235010875 ATP binding site [chemical binding]; other site 390235010876 Q-loop/lid; other site 390235010877 ABC transporter signature motif; other site 390235010878 Walker B; other site 390235010879 D-loop; other site 390235010880 H-loop/switch region; other site 390235010881 Condensation domain; Region: Condensation; pfam00668 390235010882 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010883 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010884 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 390235010885 acyl-activating enzyme (AAE) consensus motif; other site 390235010886 AMP binding site [chemical binding]; other site 390235010887 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010888 Condensation domain; Region: Condensation; pfam00668 390235010889 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010890 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010891 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010892 acyl-activating enzyme (AAE) consensus motif; other site 390235010893 AMP binding site [chemical binding]; other site 390235010894 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010895 Condensation domain; Region: Condensation; pfam00668 390235010896 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010897 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010898 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010899 acyl-activating enzyme (AAE) consensus motif; other site 390235010900 AMP binding site [chemical binding]; other site 390235010901 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010902 Condensation domain; Region: Condensation; pfam00668 390235010903 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 390235010904 Condensation domain; Region: Condensation; pfam00668 390235010905 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010906 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010907 acyl-activating enzyme (AAE) consensus motif; other site 390235010908 AMP binding site [chemical binding]; other site 390235010909 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010910 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 390235010911 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 390235010912 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235010913 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 390235010914 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 390235010915 N-terminal plug; other site 390235010916 ligand-binding site [chemical binding]; other site 390235010917 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010918 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 390235010919 acyl-activating enzyme (AAE) consensus motif; other site 390235010920 AMP binding site [chemical binding]; other site 390235010921 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010922 Condensation domain; Region: Condensation; pfam00668 390235010923 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010924 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010925 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010926 acyl-activating enzyme (AAE) consensus motif; other site 390235010927 AMP binding site [chemical binding]; other site 390235010928 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010929 Condensation domain; Region: Condensation; pfam00668 390235010930 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 390235010931 Condensation domain; Region: Condensation; pfam00668 390235010932 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010933 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 390235010934 acyl-activating enzyme (AAE) consensus motif; other site 390235010935 AMP binding site [chemical binding]; other site 390235010936 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010937 Condensation domain; Region: Condensation; pfam00668 390235010938 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 390235010939 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010940 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 390235010941 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 390235010942 SCP-2 sterol transfer family; Region: SCP2; pfam02036 390235010943 Cupin-like domain; Region: Cupin_8; pfam13621 390235010944 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 390235010945 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 390235010946 inhibitor-cofactor binding pocket; inhibition site 390235010947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235010948 catalytic residue [active] 390235010949 sensor protein QseC; Provisional; Region: PRK10337 390235010950 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 390235010951 dimer interface [polypeptide binding]; other site 390235010952 phosphorylation site [posttranslational modification] 390235010953 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 390235010954 ATP binding site [chemical binding]; other site 390235010955 G-X-G motif; other site 390235010956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235010957 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 390235010958 active site 390235010959 phosphorylation site [posttranslational modification] 390235010960 intermolecular recognition site; other site 390235010961 dimerization interface [polypeptide binding]; other site 390235010962 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 390235010963 DNA binding site [nucleotide binding] 390235010964 GAD-like domain; Region: GAD-like; pfam08887 390235010965 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 390235010966 GAD-like domain; Region: GAD-like; pfam08887 390235010967 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 390235010968 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 390235010969 Ligand binding site; other site 390235010970 metal-binding site 390235010971 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 390235010972 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 390235010973 XdhC Rossmann domain; Region: XdhC_C; pfam13478 390235010974 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235010975 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 390235010976 Cytochrome c; Region: Cytochrom_C; pfam00034 390235010977 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 390235010978 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 390235010979 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 390235010980 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 390235010981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235010982 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235010983 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 390235010984 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 390235010985 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 390235010986 DsbD alpha interface [polypeptide binding]; other site 390235010987 catalytic residues [active] 390235010988 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 390235010989 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 390235010990 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 390235010991 catalytic residues [active] 390235010992 peptide synthase; Validated; Region: PRK05691 390235010993 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 390235010994 acyl-activating enzyme (AAE) consensus motif; other site 390235010995 active site 390235010996 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235010997 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235010998 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235010999 acyl-activating enzyme (AAE) consensus motif; other site 390235011000 AMP binding site [chemical binding]; other site 390235011001 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235011002 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 390235011003 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235011004 acyl-activating enzyme (AAE) consensus motif; other site 390235011005 AMP binding site [chemical binding]; other site 390235011006 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235011007 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 390235011008 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 390235011009 acyl-activating enzyme (AAE) consensus motif; other site 390235011010 AMP binding site [chemical binding]; other site 390235011011 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 390235011012 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 390235011013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235011014 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 390235011015 DNA binding residues [nucleotide binding] 390235011016 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 390235011017 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 390235011018 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 390235011019 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 390235011020 substrate binding pocket [chemical binding]; other site 390235011021 membrane-bound complex binding site; other site 390235011022 hinge residues; other site 390235011023 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 390235011024 active site 390235011025 catalytic site [active] 390235011026 substrate binding site [chemical binding]; other site 390235011027 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 390235011028 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 390235011029 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 390235011030 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 390235011031 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 390235011032 Low-spin heme binding site [chemical binding]; other site 390235011033 Putative water exit pathway; other site 390235011034 Binuclear center (active site) [active] 390235011035 Putative proton exit pathway; other site 390235011036 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 390235011037 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 390235011038 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 390235011039 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 390235011040 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235011041 Cytochrome c; Region: Cytochrom_C; pfam00034 390235011042 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 390235011043 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 390235011044 Low-spin heme binding site [chemical binding]; other site 390235011045 Putative water exit pathway; other site 390235011046 Binuclear center (active site) [active] 390235011047 Putative proton exit pathway; other site 390235011048 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 390235011049 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 390235011050 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 390235011051 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 390235011052 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235011053 Cytochrome c; Region: Cytochrom_C; pfam00034 390235011054 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 390235011055 4Fe-4S binding domain; Region: Fer4_5; pfam12801 390235011056 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 390235011057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 390235011058 FixH; Region: FixH; pfam05751 390235011059 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 390235011060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 390235011061 Heavy-metal-associated domain; Region: HMA; pfam00403 390235011062 metal-binding site [ion binding] 390235011063 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235011064 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 390235011065 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 390235011066 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 390235011067 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 390235011068 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 390235011069 FeS/SAM binding site; other site 390235011070 HemN C-terminal domain; Region: HemN_C; pfam06969 390235011071 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 390235011072 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 390235011073 ligand binding site [chemical binding]; other site 390235011074 flexible hinge region; other site 390235011075 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 390235011076 putative switch regulator; other site 390235011077 non-specific DNA interactions [nucleotide binding]; other site 390235011078 DNA binding site [nucleotide binding] 390235011079 sequence specific DNA binding site [nucleotide binding]; other site 390235011080 putative cAMP binding site [chemical binding]; other site 390235011081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235011082 active site 390235011083 recombination protein RecR; Reviewed; Region: recR; PRK00076 390235011084 RecR protein; Region: RecR; pfam02132 390235011085 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 390235011086 putative active site [active] 390235011087 putative metal-binding site [ion binding]; other site 390235011088 tetramer interface [polypeptide binding]; other site 390235011089 hypothetical protein; Validated; Region: PRK00153 390235011090 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 390235011091 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 390235011092 Walker A motif; other site 390235011093 ATP binding site [chemical binding]; other site 390235011094 Walker B motif; other site 390235011095 arginine finger; other site 390235011096 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 390235011097 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 390235011098 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 390235011099 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 390235011100 DNA binding residues [nucleotide binding] 390235011101 putative dimer interface [polypeptide binding]; other site 390235011102 putative metal binding residues [ion binding]; other site 390235011103 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 390235011104 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 390235011105 active site 390235011106 DNA binding site [nucleotide binding] 390235011107 Int/Topo IB signature motif; other site 390235011108 KilA-N domain; Region: KilA-N; pfam04383 390235011109 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 390235011110 Homeodomain-like domain; Region: HTH_23; pfam13384 390235011111 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 390235011112 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 390235011113 non-specific DNA binding site [nucleotide binding]; other site 390235011114 salt bridge; other site 390235011115 sequence-specific DNA binding site [nucleotide binding]; other site 390235011116 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 390235011117 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 390235011118 catalytic residues [active] 390235011119 catalytic nucleophile [active] 390235011120 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 390235011121 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 390235011122 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 390235011123 putative active site [active] 390235011124 putative NTP binding site [chemical binding]; other site 390235011125 putative nucleic acid binding site [nucleotide binding]; other site 390235011126 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 390235011127 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 390235011128 nucleotide binding pocket [chemical binding]; other site 390235011129 K-X-D-G motif; other site 390235011130 catalytic site [active] 390235011131 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 390235011132 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 390235011133 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 390235011134 Dimer interface [polypeptide binding]; other site 390235011135 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 390235011136 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 390235011137 FtsZ protein binding site [polypeptide binding]; other site 390235011138 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 390235011139 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 390235011140 Walker A/P-loop; other site 390235011141 ATP binding site [chemical binding]; other site 390235011142 Q-loop/lid; other site 390235011143 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 390235011144 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 390235011145 ABC transporter signature motif; other site 390235011146 Walker B; other site 390235011147 D-loop; other site 390235011148 H-loop/switch region; other site 390235011149 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235011150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235011151 DNA-binding site [nucleotide binding]; DNA binding site 390235011152 FCD domain; Region: FCD; pfam07729 390235011153 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 390235011154 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 390235011155 catalytic loop [active] 390235011156 iron binding site [ion binding]; other site 390235011157 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 390235011158 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 390235011159 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 390235011160 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 390235011161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 390235011162 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 390235011163 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 390235011164 XdhC Rossmann domain; Region: XdhC_C; pfam13478 390235011165 guanine deaminase; Provisional; Region: PRK09228 390235011166 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 390235011167 active site 390235011168 aquaporin Z; Provisional; Region: PRK05420 390235011169 amphipathic channel; other site 390235011170 Asn-Pro-Ala signature motifs; other site 390235011171 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235011172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235011173 DNA-binding site [nucleotide binding]; DNA binding site 390235011174 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 390235011175 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 390235011176 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 390235011177 active site 390235011178 homotetramer interface [polypeptide binding]; other site 390235011179 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 390235011180 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 390235011181 active site 390235011182 catalytic site [active] 390235011183 tetramer interface [polypeptide binding]; other site 390235011184 OHCU decarboxylase; Region: UHCUDC; TIGR03164 390235011185 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 390235011186 ureidoglycolate hydrolase; Provisional; Region: PRK03606 390235011187 Predicted membrane protein [Function unknown]; Region: COG3748 390235011188 Protein of unknown function (DUF989); Region: DUF989; pfam06181 390235011189 Cytochrome c; Region: Cytochrom_C; pfam00034 390235011190 xanthine permease; Region: pbuX; TIGR03173 390235011191 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 390235011192 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 390235011193 Protein of unknown function (DUF808); Region: DUF808; pfam05661 390235011194 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 390235011195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235011196 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 390235011197 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 390235011198 glyoxylate carboligase; Provisional; Region: PRK11269 390235011199 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 390235011200 PYR/PP interface [polypeptide binding]; other site 390235011201 dimer interface [polypeptide binding]; other site 390235011202 TPP binding site [chemical binding]; other site 390235011203 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 390235011204 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 390235011205 TPP-binding site [chemical binding]; other site 390235011206 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 390235011207 tartronate semialdehyde reductase; Provisional; Region: PRK15059 390235011208 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 390235011209 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 390235011210 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 390235011211 MOFRL family; Region: MOFRL; pfam05161 390235011212 pyruvate kinase; Provisional; Region: PRK06247 390235011213 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 390235011214 domain interfaces; other site 390235011215 active site 390235011216 Urea transporter; Region: UT; pfam03253 390235011217 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235011218 Urea transporter; Region: UT; cl01829 390235011219 Ion transport protein; Region: Ion_trans; pfam00520 390235011220 Ion channel; Region: Ion_trans_2; pfam07885 390235011221 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 390235011222 Leucine rich repeat; Region: LRR_8; pfam13855 390235011223 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 390235011224 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 390235011225 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 390235011226 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 390235011227 S-adenosylmethionine binding site [chemical binding]; other site 390235011228 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235011229 EamA-like transporter family; Region: EamA; pfam00892 390235011230 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235011231 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 390235011232 AsnC family; Region: AsnC_trans_reg; pfam01037 390235011233 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 390235011234 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 390235011235 Na binding site [ion binding]; other site 390235011236 putative substrate binding site [chemical binding]; other site 390235011237 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 390235011238 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 390235011239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235011240 hydroxyglutarate oxidase; Provisional; Region: PRK11728 390235011241 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 390235011242 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235011243 Uncharacterized conserved protein [Function unknown]; Region: COG3791 390235011244 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 390235011245 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 390235011246 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 390235011247 putative ligand binding site [chemical binding]; other site 390235011248 NAD binding site [chemical binding]; other site 390235011249 catalytic site [active] 390235011250 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 390235011251 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 390235011252 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 390235011253 binding surface 390235011254 TPR motif; other site 390235011255 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 390235011256 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 390235011257 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 390235011258 catalytic residues [active] 390235011259 central insert; other site 390235011260 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 390235011261 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 390235011262 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 390235011263 heme exporter protein CcmC; Region: ccmC; TIGR01191 390235011264 CcmB protein; Region: CcmB; cl17444 390235011265 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 390235011266 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 390235011267 Walker A/P-loop; other site 390235011268 ATP binding site [chemical binding]; other site 390235011269 Q-loop/lid; other site 390235011270 ABC transporter signature motif; other site 390235011271 Walker B; other site 390235011272 D-loop; other site 390235011273 H-loop/switch region; other site 390235011274 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 390235011275 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 390235011276 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 390235011277 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 390235011278 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 390235011279 putative CheA interaction surface; other site 390235011280 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 390235011281 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 390235011282 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 390235011283 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 390235011284 Magnesium ion binding site [ion binding]; other site 390235011285 flagellar motor protein MotD; Reviewed; Region: PRK09038 390235011286 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 390235011287 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235011288 ligand binding site [chemical binding]; other site 390235011289 flagellar motor protein; Reviewed; Region: motC; PRK09109 390235011290 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 390235011291 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 390235011292 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 390235011293 active site 390235011294 phosphorylation site [posttranslational modification] 390235011295 intermolecular recognition site; other site 390235011296 dimerization interface [polypeptide binding]; other site 390235011297 CheB methylesterase; Region: CheB_methylest; pfam01339 390235011298 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 390235011299 putative binding surface; other site 390235011300 active site 390235011301 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 390235011302 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 390235011303 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 390235011304 ATP binding site [chemical binding]; other site 390235011305 Mg2+ binding site [ion binding]; other site 390235011306 G-X-G motif; other site 390235011307 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 390235011308 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 390235011309 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 390235011310 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 390235011311 active site 390235011312 phosphorylation site [posttranslational modification] 390235011313 intermolecular recognition site; other site 390235011314 dimerization interface [polypeptide binding]; other site 390235011315 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 390235011316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235011317 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 390235011318 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 390235011319 DNA binding residues [nucleotide binding] 390235011320 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 390235011321 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 390235011322 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 390235011323 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 390235011324 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 390235011325 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 390235011326 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 390235011327 FHIPEP family; Region: FHIPEP; pfam00771 390235011328 Transcriptional regulators [Transcription]; Region: GntR; COG1802 390235011329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235011330 DNA-binding site [nucleotide binding]; DNA binding site 390235011331 FCD domain; Region: FCD; pfam07729 390235011332 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 390235011333 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 390235011334 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235011335 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 390235011336 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 390235011337 B12 binding site [chemical binding]; other site 390235011338 cystathionine beta-lyase; Provisional; Region: PRK07050 390235011339 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 390235011340 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235011341 catalytic residue [active] 390235011342 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 390235011343 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 390235011344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235011345 catalytic residue [active] 390235011346 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 390235011347 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 390235011348 ATP-grasp domain; Region: ATP-grasp_4; cl17255 390235011349 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 390235011350 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 390235011351 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 390235011352 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 390235011353 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 390235011354 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 390235011355 flagellar motor switch protein; Validated; Region: fliN; PRK05698 390235011356 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 390235011357 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 390235011358 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 390235011359 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 390235011360 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 390235011361 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 390235011362 putative binding surface; other site 390235011363 active site 390235011364 Response regulator receiver domain; Region: Response_reg; pfam00072 390235011365 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 390235011366 active site 390235011367 phosphorylation site [posttranslational modification] 390235011368 intermolecular recognition site; other site 390235011369 dimerization interface [polypeptide binding]; other site 390235011370 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 390235011371 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 390235011372 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 390235011373 ATP binding site [chemical binding]; other site 390235011374 Mg2+ binding site [ion binding]; other site 390235011375 G-X-G motif; other site 390235011376 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 390235011377 anti sigma factor interaction site; other site 390235011378 regulatory phosphorylation site [posttranslational modification]; other site 390235011379 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 390235011380 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 390235011381 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 390235011382 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 390235011383 Walker A motif/ATP binding site; other site 390235011384 Walker B motif; other site 390235011385 flagellar assembly protein H; Validated; Region: fliH; PRK05687 390235011386 Flagellar assembly protein FliH; Region: FliH; pfam02108 390235011387 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 390235011388 MgtE intracellular N domain; Region: MgtE_N; smart00924 390235011389 FliG C-terminal domain; Region: FliG_C; pfam01706 390235011390 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 390235011391 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 390235011392 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 390235011393 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 390235011394 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235011395 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 390235011396 active site 390235011397 phosphorylation site [posttranslational modification] 390235011398 intermolecular recognition site; other site 390235011399 dimerization interface [polypeptide binding]; other site 390235011400 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 390235011401 Walker A motif; other site 390235011402 ATP binding site [chemical binding]; other site 390235011403 Walker B motif; other site 390235011404 arginine finger; other site 390235011405 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 390235011406 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 390235011407 putative active site [active] 390235011408 heme pocket [chemical binding]; other site 390235011409 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 390235011410 dimer interface [polypeptide binding]; other site 390235011411 phosphorylation site [posttranslational modification] 390235011412 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 390235011413 ATP binding site [chemical binding]; other site 390235011414 Mg2+ binding site [ion binding]; other site 390235011415 G-X-G motif; other site 390235011416 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235011417 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 390235011418 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 390235011419 Walker A motif; other site 390235011420 ATP binding site [chemical binding]; other site 390235011421 Walker B motif; other site 390235011422 arginine finger; other site 390235011423 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235011424 flagellar protein FliS; Validated; Region: fliS; PRK05685 390235011425 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 390235011426 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 390235011427 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 390235011428 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 390235011429 FlaG protein; Region: FlaG; pfam03646 390235011430 flagellin; Provisional; Region: PRK12802 390235011431 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 390235011432 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 390235011433 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 390235011434 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 390235011435 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 390235011436 dimer interface [polypeptide binding]; other site 390235011437 active site 390235011438 CoA binding pocket [chemical binding]; other site 390235011439 pseudaminic acid synthase; Region: PseI; TIGR03586 390235011440 NeuB family; Region: NeuB; pfam03102 390235011441 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 390235011442 NeuB binding interface [polypeptide binding]; other site 390235011443 putative substrate binding site [chemical binding]; other site 390235011444 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 390235011445 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 390235011446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 390235011447 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 390235011448 ligand binding site; other site 390235011449 tetramer interface; other site 390235011450 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 390235011451 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 390235011452 inhibitor-cofactor binding pocket; inhibition site 390235011453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011454 catalytic residue [active] 390235011455 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 390235011456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235011457 NAD(P) binding site [chemical binding]; other site 390235011458 active site 390235011459 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 390235011460 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 390235011461 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235011462 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 390235011463 Probable Catalytic site; other site 390235011464 metal-binding site 390235011465 Cephalosporin hydroxylase; Region: CmcI; pfam04989 390235011466 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235011467 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 390235011468 S-adenosylmethionine binding site [chemical binding]; other site 390235011469 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 390235011470 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 390235011471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235011472 NAD(P) binding site [chemical binding]; other site 390235011473 active site 390235011474 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 390235011475 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235011476 Methyltransferase domain; Region: Methyltransf_12; pfam08242 390235011477 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 390235011478 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 390235011479 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 390235011480 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 390235011481 NAD binding site [chemical binding]; other site 390235011482 homotetramer interface [polypeptide binding]; other site 390235011483 homodimer interface [polypeptide binding]; other site 390235011484 substrate binding site [chemical binding]; other site 390235011485 active site 390235011486 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 390235011487 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 390235011488 substrate binding site; other site 390235011489 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 390235011490 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 390235011491 active site 390235011492 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 390235011493 active site 390235011494 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 390235011495 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 390235011496 Probable Catalytic site; other site 390235011497 metal-binding site 390235011498 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235011499 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 390235011500 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 390235011501 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 390235011502 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 390235011503 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 390235011504 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 390235011505 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 390235011506 flagellar rod assembly protein/muramidase FlgJ; Region: flagell_FlgJ; TIGR02541 390235011507 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 390235011508 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 390235011509 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 390235011510 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 390235011511 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 390235011512 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 390235011513 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 390235011514 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 390235011515 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 390235011516 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 390235011517 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 390235011518 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 390235011519 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 390235011520 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 390235011521 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 390235011522 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 390235011523 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 390235011524 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 390235011525 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 390235011526 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 390235011527 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 390235011528 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 390235011529 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 390235011530 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 390235011531 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 390235011532 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 390235011533 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235011534 Response regulator receiver domain; Region: Response_reg; pfam00072 390235011535 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 390235011536 active site 390235011537 phosphorylation site [posttranslational modification] 390235011538 intermolecular recognition site; other site 390235011539 dimerization interface [polypeptide binding]; other site 390235011540 SAF-like; Region: SAF_2; pfam13144 390235011541 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 390235011542 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 390235011543 FlgN protein; Region: FlgN; pfam05130 390235011544 Flagellar regulator YcgR; Region: YcgR; pfam07317 390235011545 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 390235011546 PilZ domain; Region: PilZ; pfam07238 390235011547 putative MFS family transporter protein; Provisional; Region: PRK03633 390235011548 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 390235011549 putative substrate translocation pore; other site 390235011550 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235011551 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235011552 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235011553 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 390235011554 putative DNA binding site [nucleotide binding]; other site 390235011555 putative Zn2+ binding site [ion binding]; other site 390235011556 AsnC family; Region: AsnC_trans_reg; pfam01037 390235011557 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 390235011558 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 390235011559 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 390235011560 tetramer interface [polypeptide binding]; other site 390235011561 TPP-binding site [chemical binding]; other site 390235011562 heterodimer interface [polypeptide binding]; other site 390235011563 phosphorylation loop region [posttranslational modification] 390235011564 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 390235011565 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 390235011566 alpha subunit interface [polypeptide binding]; other site 390235011567 TPP binding site [chemical binding]; other site 390235011568 heterodimer interface [polypeptide binding]; other site 390235011569 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 390235011570 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 390235011571 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 390235011572 E3 interaction surface; other site 390235011573 lipoyl attachment site [posttranslational modification]; other site 390235011574 e3 binding domain; Region: E3_binding; pfam02817 390235011575 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 390235011576 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 390235011577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235011578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235011579 Methyltransferase domain; Region: Methyltransf_24; pfam13578 390235011580 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 390235011581 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 390235011582 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 390235011583 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 390235011584 putative trimer interface [polypeptide binding]; other site 390235011585 putative CoA binding site [chemical binding]; other site 390235011586 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 390235011587 active site 390235011588 Methyltransferase domain; Region: Methyltransf_24; pfam13578 390235011589 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 390235011590 Methyltransferase domain; Region: Methyltransf_23; pfam13489 390235011591 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 390235011592 S-adenosylmethionine binding site [chemical binding]; other site 390235011593 WbqC-like protein family; Region: WbqC; pfam08889 390235011594 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 390235011595 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 390235011596 inhibitor-cofactor binding pocket; inhibition site 390235011597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011598 catalytic residue [active] 390235011599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 390235011600 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 390235011601 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 390235011602 active site 390235011603 Endonuclease I; Region: Endonuclease_1; pfam04231 390235011604 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 390235011605 active site 390235011606 Arc-like DNA binding domain; Region: Arc; pfam03869 390235011607 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 390235011608 MgtE intracellular N domain; Region: MgtE_N; smart00924 390235011609 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 390235011610 Divalent cation transporter; Region: MgtE; cl00786 390235011611 carbon storage regulator; Provisional; Region: PRK01712 390235011612 aspartate kinase; Reviewed; Region: PRK06635 390235011613 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 390235011614 putative nucleotide binding site [chemical binding]; other site 390235011615 putative catalytic residues [active] 390235011616 putative Mg ion binding site [ion binding]; other site 390235011617 putative aspartate binding site [chemical binding]; other site 390235011618 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 390235011619 putative allosteric regulatory site; other site 390235011620 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 390235011621 putative allosteric regulatory residue; other site 390235011622 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 390235011623 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 390235011624 motif 1; other site 390235011625 active site 390235011626 motif 2; other site 390235011627 motif 3; other site 390235011628 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 390235011629 DHHA1 domain; Region: DHHA1; pfam02272 390235011630 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 390235011631 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 390235011632 putative active site [active] 390235011633 Zn binding site [ion binding]; other site 390235011634 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 390235011635 succinylarginine dihydrolase; Provisional; Region: PRK13281 390235011636 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 390235011637 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 390235011638 NAD(P) binding site [chemical binding]; other site 390235011639 catalytic residues [active] 390235011640 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 390235011641 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 390235011642 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 390235011643 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 390235011644 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 390235011645 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 390235011646 inhibitor-cofactor binding pocket; inhibition site 390235011647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011648 catalytic residue [active] 390235011649 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235011650 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235011651 conserved cys residue [active] 390235011652 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235011653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235011654 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 390235011655 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235011656 Walker A/P-loop; other site 390235011657 ATP binding site [chemical binding]; other site 390235011658 Q-loop/lid; other site 390235011659 ABC transporter signature motif; other site 390235011660 Walker B; other site 390235011661 D-loop; other site 390235011662 H-loop/switch region; other site 390235011663 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 390235011664 dimer interface [polypeptide binding]; other site 390235011665 conserved gate region; other site 390235011666 putative PBP binding loops; other site 390235011667 ABC-ATPase subunit interface; other site 390235011668 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235011669 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 390235011670 dimer interface [polypeptide binding]; other site 390235011671 conserved gate region; other site 390235011672 putative PBP binding loops; other site 390235011673 ABC-ATPase subunit interface; other site 390235011674 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 390235011675 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 390235011676 substrate binding pocket [chemical binding]; other site 390235011677 membrane-bound complex binding site; other site 390235011678 hinge residues; other site 390235011679 acetyl-CoA synthetase; Provisional; Region: PRK00174 390235011680 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 390235011681 active site 390235011682 CoA binding site [chemical binding]; other site 390235011683 acyl-activating enzyme (AAE) consensus motif; other site 390235011684 AMP binding site [chemical binding]; other site 390235011685 acetate binding site [chemical binding]; other site 390235011686 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235011687 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 390235011688 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 390235011689 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 390235011690 putative active site [active] 390235011691 heme pocket [chemical binding]; other site 390235011692 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 390235011693 Walker A motif; other site 390235011694 ATP binding site [chemical binding]; other site 390235011695 Walker B motif; other site 390235011696 arginine finger; other site 390235011697 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 390235011698 cofactor binding site; other site 390235011699 metal binding site [ion binding]; metal-binding site 390235011700 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 390235011701 aromatic arch; other site 390235011702 DCoH dimer interaction site [polypeptide binding]; other site 390235011703 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 390235011704 DCoH tetramer interaction site [polypeptide binding]; other site 390235011705 substrate binding site [chemical binding]; other site 390235011706 major facilitator superfamily transporter; Provisional; Region: PRK05122 390235011707 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 390235011708 putative substrate translocation pore; other site 390235011709 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 390235011710 FAD binding domain; Region: FAD_binding_4; pfam01565 390235011711 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 390235011712 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235011713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235011714 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 390235011715 dimerization interface [polypeptide binding]; other site 390235011716 aromatic amino acid transporter; Provisional; Region: PRK10238 390235011717 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 390235011718 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 390235011719 RNA binding surface [nucleotide binding]; other site 390235011720 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 390235011721 probable active site [active] 390235011722 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 390235011723 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 390235011724 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 390235011725 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 390235011726 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 390235011727 active site 390235011728 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 390235011729 intracellular septation protein A; Reviewed; Region: PRK00259 390235011730 YciI-like protein; Reviewed; Region: PRK11370 390235011731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235011732 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 390235011733 active site 390235011734 phosphorylation site [posttranslational modification] 390235011735 intermolecular recognition site; other site 390235011736 dimerization interface [polypeptide binding]; other site 390235011737 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 390235011738 DNA binding site [nucleotide binding] 390235011739 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 390235011740 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235011741 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 390235011742 dimerization interface [polypeptide binding]; other site 390235011743 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 390235011744 ATP binding site [chemical binding]; other site 390235011745 Mg2+ binding site [ion binding]; other site 390235011746 G-X-G motif; other site 390235011747 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 390235011748 putative FMN binding site [chemical binding]; other site 390235011749 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 390235011750 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 390235011751 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235011752 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235011753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235011754 Protein of unknown function (DUF962); Region: DUF962; cl01879 390235011755 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 390235011756 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 390235011757 putative active site [active] 390235011758 putative metal binding site [ion binding]; other site 390235011759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235011760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235011761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235011762 EamA-like transporter family; Region: EamA; pfam00892 390235011763 Rdx family; Region: Rdx; cl01407 390235011764 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 390235011765 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 390235011766 active site 390235011767 nucleophile elbow; other site 390235011768 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235011769 Surface antigen; Region: Bac_surface_Ag; pfam01103 390235011770 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235011771 MarR family; Region: MarR_2; pfam12802 390235011772 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 390235011773 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 390235011774 ATP binding site [chemical binding]; other site 390235011775 putative Mg++ binding site [ion binding]; other site 390235011776 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 390235011777 nucleotide binding region [chemical binding]; other site 390235011778 ATP-binding site [chemical binding]; other site 390235011779 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 390235011780 HRDC domain; Region: HRDC; pfam00570 390235011781 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 390235011782 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 390235011783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 390235011784 VCBS repeat; Region: VCBS_repeat; TIGR01965 390235011785 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 390235011786 VCBS repeat; Region: VCBS_repeat; TIGR01965 390235011787 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 390235011788 VCBS repeat; Region: VCBS_repeat; TIGR01965 390235011789 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 390235011790 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 390235011791 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 390235011792 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 390235011793 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 390235011794 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 390235011795 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39_likeD; cd02421 390235011796 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235011797 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 390235011798 Walker A/P-loop; other site 390235011799 ATP binding site [chemical binding]; other site 390235011800 Q-loop/lid; other site 390235011801 ABC transporter signature motif; other site 390235011802 Walker B; other site 390235011803 D-loop; other site 390235011804 H-loop/switch region; other site 390235011805 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 390235011806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235011807 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235011808 DTW domain; Region: DTW; cl01221 390235011809 PAS domain; Region: PAS_9; pfam13426 390235011810 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 390235011811 putative active site [active] 390235011812 heme pocket [chemical binding]; other site 390235011813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235011814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235011815 dimer interface [polypeptide binding]; other site 390235011816 putative CheW interface [polypeptide binding]; other site 390235011817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235011818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235011819 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 390235011820 dimerization interface [polypeptide binding]; other site 390235011821 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 390235011822 agmatinase; Region: agmatinase; TIGR01230 390235011823 oligomer interface [polypeptide binding]; other site 390235011824 putative active site [active] 390235011825 Mn binding site [ion binding]; other site 390235011826 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 390235011827 Na binding site [ion binding]; other site 390235011828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235011829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235011830 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 390235011831 putative dimerization interface [polypeptide binding]; other site 390235011832 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 390235011833 putative substrate translocation pore; other site 390235011834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 390235011835 EamA-like transporter family; Region: EamA; pfam00892 390235011836 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 390235011837 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 390235011838 Protein of unknown function (DUF497); Region: DUF497; cl01108 390235011839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235011840 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 390235011841 DNA binding residues [nucleotide binding] 390235011842 dimerization interface [polypeptide binding]; other site 390235011843 helicase 45; Provisional; Region: PTZ00424 390235011844 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 390235011845 ATP binding site [chemical binding]; other site 390235011846 Mg++ binding site [ion binding]; other site 390235011847 motif III; other site 390235011848 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 390235011849 nucleotide binding region [chemical binding]; other site 390235011850 ATP-binding site [chemical binding]; other site 390235011851 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 390235011852 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235011853 Predicted permeases [General function prediction only]; Region: COG0679 390235011854 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 390235011855 azoreductase; Reviewed; Region: PRK00170 390235011856 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235011857 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 390235011858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235011859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235011860 LysR substrate binding domain; Region: LysR_substrate; pfam03466 390235011861 dimerization interface [polypeptide binding]; other site 390235011862 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 390235011863 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235011864 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 390235011865 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 390235011866 substrate binding site [chemical binding]; other site 390235011867 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 390235011868 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235011869 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 390235011870 Walker A/P-loop; other site 390235011871 ATP binding site [chemical binding]; other site 390235011872 Q-loop/lid; other site 390235011873 ABC transporter signature motif; other site 390235011874 Walker B; other site 390235011875 D-loop; other site 390235011876 H-loop/switch region; other site 390235011877 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 390235011878 Protein of unknown function, DUF482; Region: DUF482; pfam04339 390235011879 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 390235011880 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 390235011881 dimer interface [polypeptide binding]; other site 390235011882 active site 390235011883 CoA binding pocket [chemical binding]; other site 390235011884 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 390235011885 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 390235011886 ATP binding site [chemical binding]; other site 390235011887 putative Mg++ binding site [ion binding]; other site 390235011888 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 390235011889 nucleotide binding region [chemical binding]; other site 390235011890 ATP-binding site [chemical binding]; other site 390235011891 Helicase associated domain (HA2); Region: HA2; pfam04408 390235011892 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 390235011893 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 390235011894 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 390235011895 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 390235011896 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235011897 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235011898 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 390235011899 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 390235011900 acyl-activating enzyme (AAE) consensus motif; other site 390235011901 putative AMP binding site [chemical binding]; other site 390235011902 putative active site [active] 390235011903 putative CoA binding site [chemical binding]; other site 390235011904 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 390235011905 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 390235011906 acyl-activating enzyme (AAE) consensus motif; other site 390235011907 putative AMP binding site [chemical binding]; other site 390235011908 putative active site [active] 390235011909 putative CoA binding site [chemical binding]; other site 390235011910 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 390235011911 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235011912 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235011913 (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 390235011914 dimer interaction site [polypeptide binding]; other site 390235011915 substrate-binding tunnel; other site 390235011916 active site 390235011917 catalytic site [active] 390235011918 substrate binding site [chemical binding]; other site 390235011919 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 390235011920 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235011921 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 390235011922 Tetratricopeptide repeat; Region: TPR_2; pfam07719 390235011923 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 390235011924 putative hydrophobic ligand binding site [chemical binding]; other site 390235011925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 390235011926 SnoaL-like domain; Region: SnoaL_3; pfam13474 390235011927 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 390235011928 LysE type translocator; Region: LysE; pfam01810 390235011929 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 390235011930 HicB family; Region: HicB; pfam05534 390235011931 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 390235011932 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 390235011933 tetramer interface [polypeptide binding]; other site 390235011934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011935 catalytic residue [active] 390235011936 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 390235011937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235011938 DNA-binding site [nucleotide binding]; DNA binding site 390235011939 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 390235011940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011941 homodimer interface [polypeptide binding]; other site 390235011942 catalytic residue [active] 390235011943 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235011944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235011945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 390235011946 Coenzyme A binding pocket [chemical binding]; other site 390235011947 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 390235011948 active site 390235011949 catalytic residues [active] 390235011950 metal binding site [ion binding]; metal-binding site 390235011951 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 390235011952 CsbD-like; Region: CsbD; pfam05532 390235011953 Right handed beta helix region; Region: Beta_helix; pfam13229 390235011954 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 390235011955 S1 domain; Region: S1_2; pfam13509 390235011956 S1 domain; Region: S1_2; pfam13509 390235011957 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 390235011958 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 390235011959 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 390235011960 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 390235011961 EamA-like transporter family; Region: EamA; pfam00892 390235011962 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 390235011963 EamA-like transporter family; Region: EamA; pfam00892 390235011964 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 390235011965 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 390235011966 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 390235011967 dimer interface [polypeptide binding]; other site 390235011968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235011969 catalytic residue [active] 390235011970 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 390235011971 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235011972 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 390235011973 Walker A motif; other site 390235011974 ATP binding site [chemical binding]; other site 390235011975 Walker B motif; other site 390235011976 arginine finger; other site 390235011977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 390235011978 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 390235011979 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 390235011980 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 390235011981 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 390235011982 putative active site [active] 390235011983 benzoate transport; Region: 2A0115; TIGR00895 390235011984 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 390235011985 putative substrate translocation pore; other site 390235011986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235011987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235011988 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 390235011989 dimerization interface [polypeptide binding]; other site 390235011990 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 390235011991 PAAR motif; Region: PAAR_motif; pfam05488 390235011992 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 390235011993 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 390235011994 RHS Repeat; Region: RHS_repeat; cl11982 390235011995 RHS protein; Region: RHS; pfam03527 390235011996 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235011997 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 390235011998 RHS protein; Region: RHS; pfam03527 390235011999 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235012000 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 390235012001 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 390235012002 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 390235012003 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 390235012004 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 390235012005 putative active site [active] 390235012006 putative dimer interface [polypeptide binding]; other site 390235012007 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 390235012008 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235012009 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 390235012010 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 390235012011 ligand binding site [chemical binding]; other site 390235012012 flexible hinge region; other site 390235012013 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 390235012014 active site 390235012015 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 390235012016 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 390235012017 hypothetical protein; Provisional; Region: PRK05170 390235012018 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 390235012019 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 390235012020 NAD binding site [chemical binding]; other site 390235012021 ligand binding site [chemical binding]; other site 390235012022 catalytic site [active] 390235012023 YcgL domain; Region: YcgL; pfam05166 390235012024 ribonuclease D; Region: rnd; TIGR01388 390235012025 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 390235012026 catalytic site [active] 390235012027 putative active site [active] 390235012028 putative substrate binding site [chemical binding]; other site 390235012029 HRDC domain; Region: HRDC; pfam00570 390235012030 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 390235012031 putative substrate binding pocket [chemical binding]; other site 390235012032 trimer interface [polypeptide binding]; other site 390235012033 Protein of unknown function (DUF465); Region: DUF465; pfam04325 390235012034 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 390235012035 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 390235012036 homodimer interface [polypeptide binding]; other site 390235012037 substrate-cofactor binding pocket; other site 390235012038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012039 catalytic residue [active] 390235012040 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235012041 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 390235012042 putative DNA binding site [nucleotide binding]; other site 390235012043 putative Zn2+ binding site [ion binding]; other site 390235012044 AsnC family; Region: AsnC_trans_reg; pfam01037 390235012045 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 390235012046 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 390235012047 putative molybdopterin cofactor binding site [chemical binding]; other site 390235012048 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 390235012049 putative molybdopterin cofactor binding site; other site 390235012050 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 390235012051 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 390235012052 FeS/SAM binding site; other site 390235012053 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 390235012054 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 390235012055 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 390235012056 MPT binding site; other site 390235012057 trimer interface [polypeptide binding]; other site 390235012058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235012059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235012060 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 390235012061 dimerization interface [polypeptide binding]; other site 390235012062 Bacterial SH3 domain; Region: SH3_3; pfam08239 390235012063 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235012064 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 390235012065 active site 390235012066 FMN binding site [chemical binding]; other site 390235012067 substrate binding site [chemical binding]; other site 390235012068 homotetramer interface [polypeptide binding]; other site 390235012069 catalytic residue [active] 390235012070 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 390235012071 dimerization interface [polypeptide binding]; other site 390235012072 putative DNA binding site [nucleotide binding]; other site 390235012073 putative Zn2+ binding site [ion binding]; other site 390235012074 malate:quinone oxidoreductase; Validated; Region: PRK05257 390235012075 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 390235012076 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 390235012077 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 390235012078 virion protein; Provisional; Region: V; PHA02564 390235012079 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 390235012080 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 390235012081 Phage-related protein, tail component [Function unknown]; Region: COG4733 390235012082 Putative phage tail protein; Region: Phage-tail_3; pfam13550 390235012083 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 390235012084 Phage-related protein, tail component [Function unknown]; Region: COG4723 390235012085 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 390235012086 MPN+ (JAMM) motif; other site 390235012087 Zinc-binding site [ion binding]; other site 390235012088 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 390235012089 NlpC/P60 family; Region: NLPC_P60; cl17555 390235012090 Phage-related protein [Function unknown]; Region: gp18; COG4672 390235012091 Phage minor tail protein; Region: Phage_min_tail; pfam05939 390235012092 tape measure domain; Region: tape_meas_nterm; TIGR02675 390235012093 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 390235012094 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 390235012095 Phage tail protein; Region: Phage_tail_3; pfam08813 390235012096 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 390235012097 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 390235012098 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 390235012099 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 390235012100 oligomerization interface [polypeptide binding]; other site 390235012101 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 390235012102 Phage capsid family; Region: Phage_capsid; pfam05065 390235012103 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 390235012104 Phage portal protein; Region: Phage_portal; pfam04860 390235012105 Phage-related protein [Function unknown]; Region: COG4695; cl01923 390235012106 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 390235012107 Terminase small subunit; Region: Terminase_2; cl01513 390235012108 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 390235012109 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 390235012110 active site 390235012111 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 390235012112 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 390235012113 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 390235012114 replicative DNA helicase; Region: DnaB; TIGR00665 390235012115 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 390235012116 Walker A motif; other site 390235012117 ATP binding site [chemical binding]; other site 390235012118 Walker B motif; other site 390235012119 DNA binding loops [nucleotide binding] 390235012120 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 390235012121 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235012122 Walker A motif; other site 390235012123 ATP binding site [chemical binding]; other site 390235012124 Walker B motif; other site 390235012125 arginine finger; other site 390235012126 ORF6N domain; Region: ORF6N; pfam10543 390235012127 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 390235012128 non-specific DNA binding site [nucleotide binding]; other site 390235012129 Predicted transcriptional regulator [Transcription]; Region: COG2932 390235012130 salt bridge; other site 390235012131 sequence-specific DNA binding site [nucleotide binding]; other site 390235012132 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 390235012133 Catalytic site [active] 390235012134 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 390235012135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235012136 DNA binding residues [nucleotide binding] 390235012137 Global regulator protein family; Region: CsrA; pfam02599 390235012138 HNH endonuclease; Region: HNH_3; pfam13392 390235012139 Helix-turn-helix domain; Region: HTH_17; cl17695 390235012140 integrase; Provisional; Region: int; PHA02601 390235012141 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 390235012142 catalytic residues [active] 390235012143 Int/Topo IB signature motif; other site 390235012144 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 390235012145 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 390235012146 ATP binding site [chemical binding]; other site 390235012147 active site 390235012148 substrate binding site [chemical binding]; other site 390235012149 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 390235012150 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 390235012151 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 390235012152 dihydrodipicolinate synthase; Region: dapA; TIGR00674 390235012153 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 390235012154 dimer interface [polypeptide binding]; other site 390235012155 active site 390235012156 catalytic residue [active] 390235012157 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 390235012158 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 390235012159 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 390235012160 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 390235012161 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 390235012162 catalytic triad [active] 390235012163 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 390235012164 Domain of unknown function DUF20; Region: UPF0118; pfam01594 390235012165 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 390235012166 CPxP motif; other site 390235012167 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 390235012168 Peptidase family M48; Region: Peptidase_M48; cl12018 390235012169 quinolinate synthetase; Provisional; Region: PRK09375 390235012170 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 390235012171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 390235012172 amino acid transporter; Region: 2A0306; TIGR00909 390235012173 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 390235012174 dimerization interface [polypeptide binding]; other site 390235012175 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235012176 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235012177 dimer interface [polypeptide binding]; other site 390235012178 putative CheW interface [polypeptide binding]; other site 390235012179 Cation efflux family; Region: Cation_efflux; cl00316 390235012180 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 390235012181 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 390235012182 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 390235012183 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 390235012184 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 390235012185 Ligand Binding Site [chemical binding]; other site 390235012186 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 390235012187 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 390235012188 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 390235012189 Tetratricopeptide repeat; Region: TPR_6; pfam13174 390235012190 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235012191 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235012192 ligand binding site [chemical binding]; other site 390235012193 translocation protein TolB; Provisional; Region: tolB; PRK00178 390235012194 TolB amino-terminal domain; Region: TolB_N; pfam04052 390235012195 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 390235012196 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 390235012197 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 390235012198 TolA protein; Region: tolA_full; TIGR02794 390235012199 TolA protein; Region: tolA_full; TIGR02794 390235012200 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 390235012201 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 390235012202 TolR protein; Region: tolR; TIGR02801 390235012203 TolQ protein; Region: tolQ; TIGR02796 390235012204 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 390235012205 active site 390235012206 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 390235012207 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 390235012208 Walker A motif; other site 390235012209 ATP binding site [chemical binding]; other site 390235012210 Walker B motif; other site 390235012211 arginine finger; other site 390235012212 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 390235012213 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 390235012214 RuvA N terminal domain; Region: RuvA_N; pfam01330 390235012215 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 390235012216 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 390235012217 active site 390235012218 putative DNA-binding cleft [nucleotide binding]; other site 390235012219 dimer interface [polypeptide binding]; other site 390235012220 hypothetical protein; Validated; Region: PRK00110 390235012221 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 390235012222 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 390235012223 dimer interface [polypeptide binding]; other site 390235012224 anticodon binding site; other site 390235012225 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 390235012226 homodimer interface [polypeptide binding]; other site 390235012227 motif 1; other site 390235012228 active site 390235012229 motif 2; other site 390235012230 GAD domain; Region: GAD; pfam02938 390235012231 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 390235012232 active site 390235012233 motif 3; other site 390235012234 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 390235012235 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 390235012236 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 390235012237 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 390235012238 dimerization interface [polypeptide binding]; other site 390235012239 DPS ferroxidase diiron center [ion binding]; other site 390235012240 ion pore; other site 390235012241 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 390235012242 DNA-binding site [nucleotide binding]; DNA binding site 390235012243 RNA-binding motif; other site 390235012244 hypothetical protein; Provisional; Region: PRK00295 390235012245 HIT domain; Region: HIT; pfam01230 390235012246 nucleotide binding site/active site [active] 390235012247 HIT family signature motif; other site 390235012248 catalytic residue [active] 390235012249 outer membrane porin, OprD family; Region: OprD; pfam03573 390235012250 prolyl-tRNA synthetase; Provisional; Region: PRK09194 390235012251 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 390235012252 dimer interface [polypeptide binding]; other site 390235012253 motif 1; other site 390235012254 active site 390235012255 motif 2; other site 390235012256 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 390235012257 putative deacylase active site [active] 390235012258 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 390235012259 active site 390235012260 motif 3; other site 390235012261 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 390235012262 anticodon binding site; other site 390235012263 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 390235012264 active site 390235012265 DNA polymerase IV; Validated; Region: PRK02406 390235012266 DNA binding site [nucleotide binding] 390235012267 Predicted integral membrane protein [Function unknown]; Region: COG0392 390235012268 Uncharacterized conserved protein [Function unknown]; Region: COG2898 390235012269 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 390235012270 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 390235012271 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 390235012272 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 390235012273 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 390235012274 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 390235012275 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 390235012276 FeS/SAM binding site; other site 390235012277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 390235012278 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235012279 Coenzyme A binding pocket [chemical binding]; other site 390235012280 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 390235012281 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 390235012282 RNA binding surface [nucleotide binding]; other site 390235012283 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 390235012284 active site 390235012285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 390235012286 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 390235012287 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 390235012288 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 390235012289 homodimer interaction site [polypeptide binding]; other site 390235012290 cofactor binding site; other site 390235012291 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235012292 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 390235012293 FAD binding pocket [chemical binding]; other site 390235012294 FAD binding motif [chemical binding]; other site 390235012295 phosphate binding motif [ion binding]; other site 390235012296 beta-alpha-beta structure motif; other site 390235012297 NAD binding pocket [chemical binding]; other site 390235012298 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 390235012299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235012300 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 390235012301 putative dimerization interface [polypeptide binding]; other site 390235012302 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 390235012303 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235012304 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 390235012305 active site 390235012306 phosphorylation site [posttranslational modification] 390235012307 intermolecular recognition site; other site 390235012308 dimerization interface [polypeptide binding]; other site 390235012309 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 390235012310 DNA binding residues [nucleotide binding] 390235012311 dimerization interface [polypeptide binding]; other site 390235012312 Uncharacterized conserved protein [Function unknown]; Region: COG3148 390235012313 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 390235012314 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 390235012315 recombination regulator RecX; Reviewed; Region: recX; PRK00117 390235012316 recombinase A; Provisional; Region: recA; PRK09354 390235012317 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 390235012318 hexamer interface [polypeptide binding]; other site 390235012319 Walker A motif; other site 390235012320 ATP binding site [chemical binding]; other site 390235012321 Walker B motif; other site 390235012322 Competence-damaged protein; Region: CinA; cl00666 390235012323 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 390235012324 Predicted chitinase [General function prediction only]; Region: COG3179 390235012325 catalytic residue [active] 390235012326 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 390235012327 Phage Tail Protein X; Region: Phage_tail_X; cl02088 390235012328 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 390235012329 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 390235012330 Phage tail tube protein FII; Region: Phage_tube; pfam04985 390235012331 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 390235012332 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 390235012333 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 390235012334 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 390235012335 Baseplate J-like protein; Region: Baseplate_J; cl01294 390235012336 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 390235012337 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 390235012338 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 390235012339 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 390235012340 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 390235012341 non-specific DNA binding site [nucleotide binding]; other site 390235012342 salt bridge; other site 390235012343 sequence-specific DNA binding site [nucleotide binding]; other site 390235012344 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 390235012345 Catalytic site [active] 390235012346 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 390235012347 MutS domain I; Region: MutS_I; pfam01624 390235012348 MutS domain II; Region: MutS_II; pfam05188 390235012349 MutS domain III; Region: MutS_III; pfam05192 390235012350 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 390235012351 Walker A/P-loop; other site 390235012352 ATP binding site [chemical binding]; other site 390235012353 Q-loop/lid; other site 390235012354 ABC transporter signature motif; other site 390235012355 Walker B; other site 390235012356 D-loop; other site 390235012357 H-loop/switch region; other site 390235012358 Ferredoxin [Energy production and conversion]; Region: COG1146 390235012359 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 390235012360 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 390235012361 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 390235012362 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235012363 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 390235012364 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 390235012365 DNA binding residues [nucleotide binding] 390235012366 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235012367 Peptidase family M23; Region: Peptidase_M23; pfam01551 390235012368 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 390235012369 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 390235012370 S-adenosylmethionine binding site [chemical binding]; other site 390235012371 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 390235012372 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 390235012373 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 390235012374 Permutation of conserved domain; other site 390235012375 active site 390235012376 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 390235012377 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 390235012378 homotrimer interaction site [polypeptide binding]; other site 390235012379 zinc binding site [ion binding]; other site 390235012380 CDP-binding sites; other site 390235012381 S-formylglutathione hydrolase; Region: PLN02442 390235012382 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 390235012383 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 390235012384 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 390235012385 substrate binding site [chemical binding]; other site 390235012386 catalytic Zn binding site [ion binding]; other site 390235012387 NAD binding site [chemical binding]; other site 390235012388 structural Zn binding site [ion binding]; other site 390235012389 dimer interface [polypeptide binding]; other site 390235012390 LysR family transcriptional regulator; Provisional; Region: PRK14997 390235012391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235012392 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 390235012393 putative effector binding pocket; other site 390235012394 putative dimerization interface [polypeptide binding]; other site 390235012395 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 390235012396 substrate binding site; other site 390235012397 dimer interface; other site 390235012398 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 390235012399 Septum formation initiator; Region: DivIC; cl17659 390235012400 enolase; Provisional; Region: eno; PRK00077 390235012401 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 390235012402 dimer interface [polypeptide binding]; other site 390235012403 metal binding site [ion binding]; metal-binding site 390235012404 substrate binding pocket [chemical binding]; other site 390235012405 CTP synthetase; Validated; Region: pyrG; PRK05380 390235012406 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 390235012407 Catalytic site [active] 390235012408 active site 390235012409 UTP binding site [chemical binding]; other site 390235012410 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 390235012411 active site 390235012412 putative oxyanion hole; other site 390235012413 catalytic triad [active] 390235012414 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 390235012415 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 390235012416 Ligand Binding Site [chemical binding]; other site 390235012417 TilS substrate binding domain; Region: TilS; pfam09179 390235012418 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 390235012419 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 390235012420 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 390235012421 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 390235012422 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 390235012423 putative active site [active] 390235012424 putative PHP Thumb interface [polypeptide binding]; other site 390235012425 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 390235012426 generic binding surface II; other site 390235012427 generic binding surface I; other site 390235012428 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 390235012429 RNA/DNA hybrid binding site [nucleotide binding]; other site 390235012430 active site 390235012431 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 390235012432 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 390235012433 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 390235012434 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 390235012435 active site 390235012436 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 390235012437 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 390235012438 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 390235012439 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 390235012440 trimer interface [polypeptide binding]; other site 390235012441 active site 390235012442 UDP-GlcNAc binding site [chemical binding]; other site 390235012443 lipid binding site [chemical binding]; lipid-binding site 390235012444 periplasmic chaperone; Provisional; Region: PRK10780 390235012445 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 390235012446 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 390235012447 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235012448 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235012449 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235012450 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 390235012451 Surface antigen; Region: Bac_surface_Ag; pfam01103 390235012452 zinc metallopeptidase RseP; Provisional; Region: PRK10779 390235012453 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 390235012454 active site 390235012455 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 390235012456 protein binding site [polypeptide binding]; other site 390235012457 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 390235012458 protein binding site [polypeptide binding]; other site 390235012459 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 390235012460 putative substrate binding region [chemical binding]; other site 390235012461 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 390235012462 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 390235012463 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 390235012464 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 390235012465 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 390235012466 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 390235012467 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 390235012468 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 390235012469 catalytic residue [active] 390235012470 putative FPP diphosphate binding site; other site 390235012471 putative FPP binding hydrophobic cleft; other site 390235012472 dimer interface [polypeptide binding]; other site 390235012473 putative IPP diphosphate binding site; other site 390235012474 ribosome recycling factor; Reviewed; Region: frr; PRK00083 390235012475 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 390235012476 hinge region; other site 390235012477 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 390235012478 putative nucleotide binding site [chemical binding]; other site 390235012479 uridine monophosphate binding site [chemical binding]; other site 390235012480 homohexameric interface [polypeptide binding]; other site 390235012481 elongation factor Ts; Provisional; Region: tsf; PRK09377 390235012482 UBA/TS-N domain; Region: UBA; pfam00627 390235012483 Elongation factor TS; Region: EF_TS; pfam00889 390235012484 Elongation factor TS; Region: EF_TS; pfam00889 390235012485 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 390235012486 rRNA interaction site [nucleotide binding]; other site 390235012487 S8 interaction site; other site 390235012488 putative laminin-1 binding site; other site 390235012489 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 390235012490 active site 390235012491 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 390235012492 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 390235012493 metal binding triad; other site 390235012494 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 390235012495 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 390235012496 Zn2+ binding site [ion binding]; other site 390235012497 Mg2+ binding site [ion binding]; other site 390235012498 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 390235012499 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 390235012500 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 390235012501 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 390235012502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012503 homodimer interface [polypeptide binding]; other site 390235012504 catalytic residue [active] 390235012505 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 390235012506 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 390235012507 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 390235012508 ArsC family; Region: ArsC; pfam03960 390235012509 putative catalytic residues [active] 390235012510 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 390235012511 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 390235012512 putative trimer interface [polypeptide binding]; other site 390235012513 putative CoA binding site [chemical binding]; other site 390235012514 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 390235012515 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 390235012516 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235012517 catalytic residue [active] 390235012518 Fe-S metabolism associated domain; Region: SufE; cl00951 390235012519 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 390235012520 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 390235012521 putative ATP binding site [chemical binding]; other site 390235012522 putative substrate interface [chemical binding]; other site 390235012523 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 390235012524 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 390235012525 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 390235012526 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 390235012527 Ligand binding site; other site 390235012528 DXD motif; other site 390235012529 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 390235012530 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 390235012531 metal binding site [ion binding]; metal-binding site 390235012532 dimer interface [polypeptide binding]; other site 390235012533 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 390235012534 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 390235012535 S-adenosylmethionine binding site [chemical binding]; other site 390235012536 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 390235012537 DNA-binding site [nucleotide binding]; DNA binding site 390235012538 RNA-binding motif; other site 390235012539 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 390235012540 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 390235012541 putative acyl-acceptor binding pocket; other site 390235012542 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 390235012543 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 390235012544 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 390235012545 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235012546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235012547 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235012548 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235012549 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235012550 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 390235012551 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 390235012552 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 390235012553 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 390235012554 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 390235012555 tetramer interface [polypeptide binding]; other site 390235012556 active site 390235012557 Mg2+/Mn2+ binding site [ion binding]; other site 390235012558 Protein of unknown function DUF72; Region: DUF72; cl00777 390235012559 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 390235012560 Glycoprotease family; Region: Peptidase_M22; pfam00814 390235012561 adenylate kinase; Reviewed; Region: adk; PRK00279 390235012562 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 390235012563 AMP-binding site [chemical binding]; other site 390235012564 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 390235012565 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 390235012566 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 390235012567 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 390235012568 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235012569 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235012570 ligand binding site [chemical binding]; other site 390235012571 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 390235012572 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235012573 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235012574 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 390235012575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 390235012576 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 390235012577 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 390235012578 dimer interface [polypeptide binding]; other site 390235012579 putative anticodon binding site; other site 390235012580 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 390235012581 motif 1; other site 390235012582 active site 390235012583 motif 2; other site 390235012584 motif 3; other site 390235012585 peptide chain release factor 2; Provisional; Region: PRK08787 390235012586 This domain is found in peptide chain release factors; Region: PCRF; smart00937 390235012587 RF-1 domain; Region: RF-1; pfam00472 390235012588 Response regulator receiver domain; Region: Response_reg; pfam00072 390235012589 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 390235012590 active site 390235012591 phosphorylation site [posttranslational modification] 390235012592 intermolecular recognition site; other site 390235012593 dimerization interface [polypeptide binding]; other site 390235012594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235012595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235012596 metal binding site [ion binding]; metal-binding site 390235012597 active site 390235012598 I-site; other site 390235012599 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 390235012600 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 390235012601 active site 390235012602 phosphorylation site [posttranslational modification] 390235012603 intermolecular recognition site; other site 390235012604 CheB methylesterase; Region: CheB_methylest; pfam01339 390235012605 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 390235012606 putative binding surface; other site 390235012607 active site 390235012608 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 390235012609 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 390235012610 ATP binding site [chemical binding]; other site 390235012611 Mg2+ binding site [ion binding]; other site 390235012612 G-X-G motif; other site 390235012613 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 390235012614 Response regulator receiver domain; Region: Response_reg; pfam00072 390235012615 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 390235012616 active site 390235012617 phosphorylation site [posttranslational modification] 390235012618 intermolecular recognition site; other site 390235012619 dimerization interface [polypeptide binding]; other site 390235012620 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235012621 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 390235012622 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 390235012623 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 390235012624 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 390235012625 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235012626 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 390235012627 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235012628 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 390235012629 dimerization interface [polypeptide binding]; other site 390235012630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235012631 dimer interface [polypeptide binding]; other site 390235012632 putative CheW interface [polypeptide binding]; other site 390235012633 Protein of unknown function (DUF533); Region: DUF533; pfam04391 390235012634 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 390235012635 putative metal binding site [ion binding]; other site 390235012636 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 390235012637 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235012638 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235012639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235012640 Walker A/P-loop; other site 390235012641 ATP binding site [chemical binding]; other site 390235012642 Q-loop/lid; other site 390235012643 ABC transporter signature motif; other site 390235012644 Walker B; other site 390235012645 D-loop; other site 390235012646 H-loop/switch region; other site 390235012647 TOBE domain; Region: TOBE_2; pfam08402 390235012648 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 390235012649 putative PBP binding loops; other site 390235012650 dimer interface [polypeptide binding]; other site 390235012651 ABC-ATPase subunit interface; other site 390235012652 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235012653 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 390235012654 dimer interface [polypeptide binding]; other site 390235012655 conserved gate region; other site 390235012656 putative PBP binding loops; other site 390235012657 ABC-ATPase subunit interface; other site 390235012658 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 390235012659 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 390235012660 tetrameric interface [polypeptide binding]; other site 390235012661 NAD binding site [chemical binding]; other site 390235012662 catalytic residues [active] 390235012663 substrate binding site [chemical binding]; other site 390235012664 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 390235012665 HicB family; Region: HicB; pfam05534 390235012666 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235012667 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 390235012668 active site 390235012669 FMN binding site [chemical binding]; other site 390235012670 substrate binding site [chemical binding]; other site 390235012671 homotetramer interface [polypeptide binding]; other site 390235012672 catalytic residue [active] 390235012673 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235012674 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 390235012675 DHH family; Region: DHH; pfam01368 390235012676 DHHA1 domain; Region: DHHA1; pfam02272 390235012677 YaeQ protein; Region: YaeQ; pfam07152 390235012678 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 390235012679 CoA-transferase family III; Region: CoA_transf_3; pfam02515 390235012680 conserved hypothetical protein; Region: TIGR02285 390235012681 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 390235012682 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 390235012683 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 390235012684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012685 catalytic residue [active] 390235012686 homoserine dehydrogenase; Provisional; Region: PRK06349 390235012687 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 390235012688 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 390235012689 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 390235012690 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 390235012691 dimerization domain [polypeptide binding]; other site 390235012692 dimer interface [polypeptide binding]; other site 390235012693 catalytic residues [active] 390235012694 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 390235012695 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 390235012696 active site 390235012697 Int/Topo IB signature motif; other site 390235012698 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 390235012699 TrkA-N domain; Region: TrkA_N; pfam02254 390235012700 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 390235012701 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 390235012702 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 390235012703 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 390235012704 RimM N-terminal domain; Region: RimM; pfam01782 390235012705 PRC-barrel domain; Region: PRC; pfam05239 390235012706 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 390235012707 signal recognition particle protein; Provisional; Region: PRK10867 390235012708 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 390235012709 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 390235012710 P loop; other site 390235012711 GTP binding site [chemical binding]; other site 390235012712 Signal peptide binding domain; Region: SRP_SPB; pfam02978 390235012713 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 390235012714 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 390235012715 Transporter associated domain; Region: CorC_HlyC; smart01091 390235012716 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 390235012717 metabolite-proton symporter; Region: 2A0106; TIGR00883 390235012718 putative substrate translocation pore; other site 390235012719 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 390235012720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235012721 ATP-grasp domain; Region: ATP-grasp; pfam02222 390235012722 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 390235012723 Predicted Fe-S protein [General function prediction only]; Region: COG3313 390235012724 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 390235012725 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 390235012726 trimer interface [polypeptide binding]; other site 390235012727 putative metal binding site [ion binding]; other site 390235012728 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 390235012729 putative active site [active] 390235012730 putative CoA binding site [chemical binding]; other site 390235012731 nudix motif; other site 390235012732 metal binding site [ion binding]; metal-binding site 390235012733 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 390235012734 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 390235012735 nudix motif; other site 390235012736 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 390235012737 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 390235012738 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 390235012739 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 390235012740 haemagglutination activity domain; Region: Haemagg_act; pfam05860 390235012741 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 390235012742 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 390235012743 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 390235012744 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 390235012745 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 390235012746 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 390235012747 GspL periplasmic domain; Region: GspL_C; cl14909 390235012748 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 390235012749 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 390235012750 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 390235012751 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 390235012752 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 390235012753 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 390235012754 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 390235012755 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 390235012756 type II secretion system protein F; Region: GspF; TIGR02120 390235012757 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235012758 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235012759 type II secretion system protein E; Region: type_II_gspE; TIGR02533 390235012760 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 390235012761 Walker A motif; other site 390235012762 ATP binding site [chemical binding]; other site 390235012763 Walker B motif; other site 390235012764 type II secretion system protein D; Region: type_II_gspD; TIGR02517 390235012765 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235012766 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235012767 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 390235012768 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 390235012769 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 390235012770 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 390235012771 active site 390235012772 metal binding site [ion binding]; metal-binding site 390235012773 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 390235012774 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 390235012775 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 390235012776 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 390235012777 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 390235012778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 390235012779 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 390235012780 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 390235012781 dimerization interface [polypeptide binding]; other site 390235012782 ATP binding site [chemical binding]; other site 390235012783 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 390235012784 dimerization interface [polypeptide binding]; other site 390235012785 ATP binding site [chemical binding]; other site 390235012786 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 390235012787 putative active site [active] 390235012788 catalytic triad [active] 390235012789 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 390235012790 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 390235012791 substrate binding pocket [chemical binding]; other site 390235012792 membrane-bound complex binding site; other site 390235012793 hinge residues; other site 390235012794 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 390235012795 N-acetyl-D-glucosamine binding site [chemical binding]; other site 390235012796 catalytic residue [active] 390235012797 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 390235012798 nucleoside/Zn binding site; other site 390235012799 dimer interface [polypeptide binding]; other site 390235012800 catalytic motif [active] 390235012801 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 390235012802 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 390235012803 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 390235012804 GMP synthase; Reviewed; Region: guaA; PRK00074 390235012805 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 390235012806 AMP/PPi binding site [chemical binding]; other site 390235012807 candidate oxyanion hole; other site 390235012808 catalytic triad [active] 390235012809 potential glutamine specificity residues [chemical binding]; other site 390235012810 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 390235012811 ATP Binding subdomain [chemical binding]; other site 390235012812 Ligand Binding sites [chemical binding]; other site 390235012813 Dimerization subdomain; other site 390235012814 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 390235012815 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 390235012816 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 390235012817 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 390235012818 active site 390235012819 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 390235012820 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 390235012821 generic binding surface II; other site 390235012822 generic binding surface I; other site 390235012823 Glypican; Region: Glypican; pfam01153 390235012824 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 390235012825 Peptidase family M23; Region: Peptidase_M23; pfam01551 390235012826 2-isopropylmalate synthase; Validated; Region: PRK03739 390235012827 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 390235012828 active site 390235012829 catalytic residues [active] 390235012830 metal binding site [ion binding]; metal-binding site 390235012831 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 390235012832 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 390235012833 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 390235012834 active site 390235012835 intersubunit interface [polypeptide binding]; other site 390235012836 catalytic residue [active] 390235012837 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 390235012838 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 390235012839 putative active site [active] 390235012840 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 390235012841 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 390235012842 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 390235012843 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 390235012844 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 390235012845 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 390235012846 putative active site [active] 390235012847 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 390235012848 active site 390235012849 phosphate binding residues; other site 390235012850 catalytic residues [active] 390235012851 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 390235012852 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 390235012853 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 390235012854 Walker A/P-loop; other site 390235012855 ATP binding site [chemical binding]; other site 390235012856 Q-loop/lid; other site 390235012857 ABC transporter signature motif; other site 390235012858 Walker B; other site 390235012859 D-loop; other site 390235012860 H-loop/switch region; other site 390235012861 TOBE domain; Region: TOBE_2; pfam08402 390235012862 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 390235012863 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 390235012864 dimer interface [polypeptide binding]; other site 390235012865 conserved gate region; other site 390235012866 putative PBP binding loops; other site 390235012867 ABC-ATPase subunit interface; other site 390235012868 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 390235012869 dimer interface [polypeptide binding]; other site 390235012870 conserved gate region; other site 390235012871 putative PBP binding loops; other site 390235012872 ABC-ATPase subunit interface; other site 390235012873 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 390235012874 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 390235012875 dimerization interface [polypeptide binding]; other site 390235012876 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 390235012877 putative active cleft [active] 390235012878 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235012879 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 390235012880 ATP binding site [chemical binding]; other site 390235012881 Mg2+ binding site [ion binding]; other site 390235012882 G-X-G motif; other site 390235012883 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 390235012884 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 390235012885 active site 390235012886 phosphorylation site [posttranslational modification] 390235012887 intermolecular recognition site; other site 390235012888 dimerization interface [polypeptide binding]; other site 390235012889 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 390235012890 DNA binding site [nucleotide binding] 390235012891 glucokinase; Provisional; Region: glk; PRK00292 390235012892 glucokinase, proteobacterial type; Region: glk; TIGR00749 390235012893 phosphogluconate dehydratase; Validated; Region: PRK09054 390235012894 6-phosphogluconate dehydratase; Region: edd; TIGR01196 390235012895 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 390235012896 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 390235012897 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 390235012898 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family; Region: Sig-70_gvs1; TIGR02989 390235012899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235012900 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 390235012901 DNA binding residues [nucleotide binding] 390235012902 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235012903 FecR protein; Region: FecR; pfam04773 390235012904 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235012905 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 390235012906 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 390235012907 N-terminal plug; other site 390235012908 ligand-binding site [chemical binding]; other site 390235012909 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 390235012910 heme binding pocket [chemical binding]; other site 390235012911 heme ligand [chemical binding]; other site 390235012912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 390235012913 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 390235012914 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 390235012915 arginine deiminase; Provisional; Region: PRK01388 390235012916 ornithine carbamoyltransferase; Validated; Region: PRK02102 390235012917 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 390235012918 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 390235012919 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 390235012920 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 390235012921 putative substrate binding site [chemical binding]; other site 390235012922 nucleotide binding site [chemical binding]; other site 390235012923 nucleotide binding site [chemical binding]; other site 390235012924 homodimer interface [polypeptide binding]; other site 390235012925 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 390235012926 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 390235012927 putative aromatic amino acid binding site; other site 390235012928 PAS domain; Region: PAS; smart00091 390235012929 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 390235012930 Walker A motif; other site 390235012931 ATP binding site [chemical binding]; other site 390235012932 Walker B motif; other site 390235012933 arginine finger; other site 390235012934 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 390235012935 glycine cleavage system protein H; Provisional; Region: PRK13380 390235012936 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 390235012937 lipoyl attachment site [posttranslational modification]; other site 390235012938 glycine dehydrogenase; Provisional; Region: PRK05367 390235012939 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 390235012940 tetramer interface [polypeptide binding]; other site 390235012941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012942 catalytic residue [active] 390235012943 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 390235012944 tetramer interface [polypeptide binding]; other site 390235012945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012946 catalytic residue [active] 390235012947 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 390235012948 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 390235012949 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 390235012950 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 390235012951 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 390235012952 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 390235012953 DNA-binding site [nucleotide binding]; DNA binding site 390235012954 RNA-binding motif; other site 390235012955 RDD family; Region: RDD; pfam06271 390235012956 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 390235012957 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 390235012958 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 390235012959 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 390235012960 multifunctional aminopeptidase A; Provisional; Region: PRK00913 390235012961 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 390235012962 interface (dimer of trimers) [polypeptide binding]; other site 390235012963 Substrate-binding/catalytic site; other site 390235012964 Zn-binding sites [ion binding]; other site 390235012965 DNA polymerase III subunit chi; Validated; Region: PRK05728 390235012966 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 390235012967 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 390235012968 HIGH motif; other site 390235012969 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 390235012970 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 390235012971 active site 390235012972 KMSKS motif; other site 390235012973 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 390235012974 tRNA binding surface [nucleotide binding]; other site 390235012975 anticodon binding site; other site 390235012976 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 390235012977 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 390235012978 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 390235012979 S-adenosylmethionine binding site [chemical binding]; other site 390235012980 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 390235012981 IHF - DNA interface [nucleotide binding]; other site 390235012982 IHF dimer interface [polypeptide binding]; other site 390235012983 Nucleoid-associated protein [General function prediction only]; Region: COG3081 390235012984 nucleoid-associated protein NdpA; Validated; Region: PRK00378 390235012985 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 390235012986 GIY-YIG motif/motif A; other site 390235012987 putative active site [active] 390235012988 putative metal binding site [ion binding]; other site 390235012989 SnoaL-like domain; Region: SnoaL_2; pfam12680 390235012990 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 390235012991 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 390235012992 Transcriptional regulators [Transcription]; Region: FadR; COG2186 390235012993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235012994 DNA-binding site [nucleotide binding]; DNA binding site 390235012995 FCD domain; Region: FCD; pfam07729 390235012996 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 390235012997 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 390235012998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235012999 homodimer interface [polypeptide binding]; other site 390235013000 catalytic residue [active] 390235013001 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 390235013002 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 390235013003 NAD binding site [chemical binding]; other site 390235013004 dimerization interface [polypeptide binding]; other site 390235013005 product binding site; other site 390235013006 substrate binding site [chemical binding]; other site 390235013007 zinc binding site [ion binding]; other site 390235013008 catalytic residues [active] 390235013009 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 390235013010 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 390235013011 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 390235013012 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 390235013013 hinge; other site 390235013014 active site 390235013015 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 390235013016 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 390235013017 anti sigma factor interaction site; other site 390235013018 regulatory phosphorylation site [posttranslational modification]; other site 390235013019 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 390235013020 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 390235013021 mce related protein; Region: MCE; pfam02470 390235013022 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 390235013023 Permease; Region: Permease; cl00510 390235013024 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 390235013025 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 390235013026 Walker A/P-loop; other site 390235013027 ATP binding site [chemical binding]; other site 390235013028 Q-loop/lid; other site 390235013029 ABC transporter signature motif; other site 390235013030 Walker B; other site 390235013031 D-loop; other site 390235013032 H-loop/switch region; other site 390235013033 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 390235013034 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 390235013035 putative active site [active] 390235013036 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 390235013037 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 390235013038 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 390235013039 active site 390235013040 motif I; other site 390235013041 motif II; other site 390235013042 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 390235013043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 390235013044 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 390235013045 OstA-like protein; Region: OstA; pfam03968 390235013046 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 390235013047 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 390235013048 Walker A/P-loop; other site 390235013049 ATP binding site [chemical binding]; other site 390235013050 Q-loop/lid; other site 390235013051 ABC transporter signature motif; other site 390235013052 Walker B; other site 390235013053 D-loop; other site 390235013054 H-loop/switch region; other site 390235013055 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 390235013056 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 390235013057 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 390235013058 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 390235013059 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 390235013060 30S subunit binding site; other site 390235013061 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 390235013062 active site 390235013063 phosphorylation site [posttranslational modification] 390235013064 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 390235013065 AAA domain; Region: AAA_18; pfam13238 390235013066 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 390235013067 dimerization domain swap beta strand [polypeptide binding]; other site 390235013068 regulatory protein interface [polypeptide binding]; other site 390235013069 active site 390235013070 regulatory phosphorylation site [posttranslational modification]; other site 390235013071 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 390235013072 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 390235013073 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 390235013074 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 390235013075 fumarate hydratase; Reviewed; Region: fumC; PRK00485 390235013076 Class II fumarases; Region: Fumarase_classII; cd01362 390235013077 active site 390235013078 tetramer interface [polypeptide binding]; other site 390235013079 peptidase PmbA; Provisional; Region: PRK11040 390235013080 hypothetical protein; Provisional; Region: PRK05255 390235013081 protease TldD; Provisional; Region: tldD; PRK10735 390235013082 nitrilase; Region: PLN02798 390235013083 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 390235013084 putative active site [active] 390235013085 catalytic triad [active] 390235013086 dimer interface [polypeptide binding]; other site 390235013087 TIGR02099 family protein; Region: TIGR02099 390235013088 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 390235013089 ribonuclease G; Provisional; Region: PRK11712 390235013090 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 390235013091 homodimer interface [polypeptide binding]; other site 390235013092 oligonucleotide binding site [chemical binding]; other site 390235013093 Maf-like protein; Region: Maf; pfam02545 390235013094 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 390235013095 active site 390235013096 dimer interface [polypeptide binding]; other site 390235013097 rod shape-determining protein MreD; Region: MreD; cl01087 390235013098 rod shape-determining protein MreC; Region: mreC; TIGR00219 390235013099 rod shape-determining protein MreC; Region: MreC; pfam04085 390235013100 rod shape-determining protein MreB; Provisional; Region: PRK13927 390235013101 MreB and similar proteins; Region: MreB_like; cd10225 390235013102 nucleotide binding site [chemical binding]; other site 390235013103 Mg binding site [ion binding]; other site 390235013104 putative protofilament interaction site [polypeptide binding]; other site 390235013105 RodZ interaction site [polypeptide binding]; other site 390235013106 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 390235013107 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 390235013108 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 390235013109 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 390235013110 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 390235013111 GatB domain; Region: GatB_Yqey; smart00845 390235013112 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 390235013113 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 390235013114 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 390235013115 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 390235013116 aromatic amino acid transporter; Provisional; Region: PRK10238 390235013117 Predicted permeases [General function prediction only]; Region: COG0679 390235013118 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 390235013119 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 390235013120 active site 390235013121 phosphorylation site [posttranslational modification] 390235013122 intermolecular recognition site; other site 390235013123 dimerization interface [polypeptide binding]; other site 390235013124 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235013125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235013126 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 390235013127 ATP binding site [chemical binding]; other site 390235013128 G-X-G motif; other site 390235013129 Protein of unknown function (DUF541); Region: SIMPL; cl01077 390235013130 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 390235013131 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 390235013132 peptide binding site [polypeptide binding]; other site 390235013133 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 390235013134 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 390235013135 peptide binding site [polypeptide binding]; other site 390235013136 outer membrane porin, OprD family; Region: OprD; pfam03573 390235013137 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 390235013138 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 390235013139 peptide binding site [polypeptide binding]; other site 390235013140 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 390235013141 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 390235013142 dimer interface [polypeptide binding]; other site 390235013143 conserved gate region; other site 390235013144 putative PBP binding loops; other site 390235013145 ABC-ATPase subunit interface; other site 390235013146 dipeptide transporter; Provisional; Region: PRK10913 390235013147 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 390235013148 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 390235013149 putative PBP binding loops; other site 390235013150 dimer interface [polypeptide binding]; other site 390235013151 ABC-ATPase subunit interface; other site 390235013152 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 390235013153 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235013154 Walker A/P-loop; other site 390235013155 ATP binding site [chemical binding]; other site 390235013156 Q-loop/lid; other site 390235013157 ABC transporter signature motif; other site 390235013158 Walker B; other site 390235013159 D-loop; other site 390235013160 H-loop/switch region; other site 390235013161 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 390235013162 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 390235013163 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 390235013164 Walker A/P-loop; other site 390235013165 ATP binding site [chemical binding]; other site 390235013166 Q-loop/lid; other site 390235013167 ABC transporter signature motif; other site 390235013168 Walker B; other site 390235013169 D-loop; other site 390235013170 H-loop/switch region; other site 390235013171 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 390235013172 SnoaL-like domain; Region: SnoaL_2; pfam12680 390235013173 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235013174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235013175 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235013176 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 390235013177 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 390235013178 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 390235013179 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235013180 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 390235013181 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 390235013182 G1 box; other site 390235013183 putative GEF interaction site [polypeptide binding]; other site 390235013184 GTP/Mg2+ binding site [chemical binding]; other site 390235013185 Switch I region; other site 390235013186 G2 box; other site 390235013187 G3 box; other site 390235013188 Switch II region; other site 390235013189 G4 box; other site 390235013190 G5 box; other site 390235013191 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 390235013192 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 390235013193 dimer interface [polypeptide binding]; other site 390235013194 conserved gate region; other site 390235013195 putative PBP binding loops; other site 390235013196 ABC-ATPase subunit interface; other site 390235013197 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 390235013198 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 390235013199 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 390235013200 dimer interface [polypeptide binding]; other site 390235013201 conserved gate region; other site 390235013202 ABC-ATPase subunit interface; other site 390235013203 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 390235013204 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 390235013205 Walker A/P-loop; other site 390235013206 ATP binding site [chemical binding]; other site 390235013207 Q-loop/lid; other site 390235013208 ABC transporter signature motif; other site 390235013209 Walker B; other site 390235013210 D-loop; other site 390235013211 H-loop/switch region; other site 390235013212 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 390235013213 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 390235013214 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 390235013215 N-terminal plug; other site 390235013216 ligand-binding site [chemical binding]; other site 390235013217 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235013218 FecR protein; Region: FecR; pfam04773 390235013219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235013220 RNA polymerase sigma factor; Reviewed; Region: PRK12527 390235013221 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 390235013222 DNA binding residues [nucleotide binding] 390235013223 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 390235013224 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 390235013225 dimer interface [polypeptide binding]; other site 390235013226 active site 390235013227 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235013228 catalytic residues [active] 390235013229 substrate binding site [chemical binding]; other site 390235013230 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 390235013231 Sel1-like repeats; Region: SEL1; smart00671 390235013232 Sel1 repeat; Region: Sel1; cl02723 390235013233 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 390235013234 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 390235013235 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 390235013236 N-terminal plug; other site 390235013237 ligand-binding site [chemical binding]; other site 390235013238 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235013239 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 390235013240 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235013241 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 390235013242 Flavodoxin; Region: Flavodoxin_1; pfam00258 390235013243 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 390235013244 FAD binding pocket [chemical binding]; other site 390235013245 FAD binding motif [chemical binding]; other site 390235013246 catalytic residues [active] 390235013247 NAD binding pocket [chemical binding]; other site 390235013248 phosphate binding motif [ion binding]; other site 390235013249 beta-alpha-beta structure motif; other site 390235013250 C-N hydrolase family amidase; Provisional; Region: PRK10438 390235013251 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 390235013252 putative active site [active] 390235013253 catalytic triad [active] 390235013254 dimer interface [polypeptide binding]; other site 390235013255 multimer interface [polypeptide binding]; other site 390235013256 methionine aminotransferase; Validated; Region: PRK09082 390235013257 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 390235013258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235013259 homodimer interface [polypeptide binding]; other site 390235013260 catalytic residue [active] 390235013261 GTP-binding protein Der; Reviewed; Region: PRK00093 390235013262 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 390235013263 G1 box; other site 390235013264 GTP/Mg2+ binding site [chemical binding]; other site 390235013265 Switch I region; other site 390235013266 G2 box; other site 390235013267 Switch II region; other site 390235013268 G3 box; other site 390235013269 G4 box; other site 390235013270 G5 box; other site 390235013271 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 390235013272 G1 box; other site 390235013273 GTP/Mg2+ binding site [chemical binding]; other site 390235013274 Switch I region; other site 390235013275 G2 box; other site 390235013276 G3 box; other site 390235013277 Switch II region; other site 390235013278 G4 box; other site 390235013279 G5 box; other site 390235013280 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 390235013281 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 390235013282 Trp docking motif [polypeptide binding]; other site 390235013283 active site 390235013284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 390235013285 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 390235013286 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 390235013287 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 390235013288 dimer interface [polypeptide binding]; other site 390235013289 motif 1; other site 390235013290 active site 390235013291 motif 2; other site 390235013292 motif 3; other site 390235013293 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 390235013294 anticodon binding site; other site 390235013295 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 390235013296 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 390235013297 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 390235013298 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 390235013299 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 390235013300 non-specific DNA binding site [nucleotide binding]; other site 390235013301 salt bridge; other site 390235013302 sequence-specific DNA binding site [nucleotide binding]; other site 390235013303 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 390235013304 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 390235013305 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 390235013306 TPR motif; other site 390235013307 binding surface 390235013308 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 390235013309 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 390235013310 FeS/SAM binding site; other site 390235013311 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 390235013312 active site 390235013313 multimer interface [polypeptide binding]; other site 390235013314 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 390235013315 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 390235013316 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 390235013317 catalytic loop [active] 390235013318 iron binding site [ion binding]; other site 390235013319 chaperone protein HscA; Provisional; Region: hscA; PRK05183 390235013320 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 390235013321 nucleotide binding site [chemical binding]; other site 390235013322 putative NEF/HSP70 interaction site [polypeptide binding]; other site 390235013323 SBD interface [polypeptide binding]; other site 390235013324 co-chaperone HscB; Provisional; Region: hscB; PRK00294 390235013325 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 390235013326 HSP70 interaction site [polypeptide binding]; other site 390235013327 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 390235013328 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 390235013329 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 390235013330 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 390235013331 trimerization site [polypeptide binding]; other site 390235013332 active site 390235013333 cysteine desulfurase; Provisional; Region: PRK14012 390235013334 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 390235013335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 390235013336 catalytic residue [active] 390235013337 Transcriptional regulator; Region: Rrf2; cl17282 390235013338 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 390235013339 serine O-acetyltransferase; Region: cysE; TIGR01172 390235013340 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 390235013341 trimer interface [polypeptide binding]; other site 390235013342 active site 390235013343 substrate binding site [chemical binding]; other site 390235013344 CoA binding site [chemical binding]; other site 390235013345 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 390235013346 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 390235013347 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 390235013348 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 390235013349 active site 390235013350 dimerization interface [polypeptide binding]; other site 390235013351 hypothetical protein; Provisional; Region: PRK11280 390235013352 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 390235013353 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 390235013354 Protein export membrane protein; Region: SecD_SecF; pfam02355 390235013355 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 390235013356 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 390235013357 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 390235013358 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 390235013359 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 390235013360 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 390235013361 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 390235013362 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 390235013363 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 390235013364 integrase; Provisional; Region: PRK09692 390235013365 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 390235013366 active site 390235013367 Int/Topo IB signature motif; other site 390235013368 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 390235013369 CHC2 zinc finger; Region: zf-CHC2; cl17510 390235013370 AAA domain; Region: AAA_25; pfam13481 390235013371 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 390235013372 ATP binding site [chemical binding]; other site 390235013373 Walker B motif; other site 390235013374 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 390235013375 oligomer interface [polypeptide binding]; other site 390235013376 active site residues [active] 390235013377 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 390235013378 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 390235013379 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 390235013380 active site 390235013381 DNA binding site [nucleotide binding] 390235013382 Int/Topo IB signature motif; other site 390235013383 Transcriptional regulators [Transcription]; Region: MarR; COG1846 390235013384 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 390235013385 putative DNA binding site [nucleotide binding]; other site 390235013386 putative Zn2+ binding site [ion binding]; other site 390235013387 Fic family protein [Function unknown]; Region: COG3177 390235013388 Fic/DOC family; Region: Fic; pfam02661 390235013389 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 390235013390 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 390235013391 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 390235013392 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 390235013393 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 390235013394 dimer interface [polypeptide binding]; other site 390235013395 conserved gate region; other site 390235013396 putative PBP binding loops; other site 390235013397 ABC-ATPase subunit interface; other site 390235013398 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 390235013399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235013400 Walker A/P-loop; other site 390235013401 ATP binding site [chemical binding]; other site 390235013402 Q-loop/lid; other site 390235013403 ABC transporter signature motif; other site 390235013404 Walker B; other site 390235013405 D-loop; other site 390235013406 H-loop/switch region; other site 390235013407 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 390235013408 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 390235013409 substrate binding pocket [chemical binding]; other site 390235013410 membrane-bound complex binding site; other site 390235013411 hinge residues; other site 390235013412 selenophosphate synthetase; Provisional; Region: PRK00943 390235013413 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 390235013414 dimerization interface [polypeptide binding]; other site 390235013415 putative ATP binding site [chemical binding]; other site 390235013416 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 390235013417 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 390235013418 active site residue [active] 390235013419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 390235013420 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 390235013421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 390235013422 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235013423 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 390235013424 aminotransferase; Validated; Region: PRK08175 390235013425 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 390235013426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235013427 homodimer interface [polypeptide binding]; other site 390235013428 catalytic residue [active] 390235013429 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 390235013430 UbiA prenyltransferase family; Region: UbiA; pfam01040 390235013431 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 390235013432 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 390235013433 Subunit I/III interface [polypeptide binding]; other site 390235013434 Subunit III/IV interface [polypeptide binding]; other site 390235013435 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 390235013436 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 390235013437 D-pathway; other site 390235013438 Putative ubiquinol binding site [chemical binding]; other site 390235013439 Low-spin heme (heme b) binding site [chemical binding]; other site 390235013440 Putative water exit pathway; other site 390235013441 Binuclear center (heme o3/CuB) [ion binding]; other site 390235013442 K-pathway; other site 390235013443 Putative proton exit pathway; other site 390235013444 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 390235013445 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 390235013446 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 390235013447 disulfide bond formation protein B; Provisional; Region: PRK02110 390235013448 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 390235013449 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 390235013450 heme-binding site [chemical binding]; other site 390235013451 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 390235013452 FAD binding pocket [chemical binding]; other site 390235013453 FAD binding motif [chemical binding]; other site 390235013454 phosphate binding motif [ion binding]; other site 390235013455 beta-alpha-beta structure motif; other site 390235013456 NAD binding pocket [chemical binding]; other site 390235013457 Heme binding pocket [chemical binding]; other site 390235013458 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 390235013459 GAF domain; Region: GAF; pfam01590 390235013460 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 390235013461 Walker A motif; other site 390235013462 ATP binding site [chemical binding]; other site 390235013463 Walker B motif; other site 390235013464 arginine finger; other site 390235013465 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 390235013466 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 390235013467 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 390235013468 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 390235013469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235013470 Walker A/P-loop; other site 390235013471 ATP binding site [chemical binding]; other site 390235013472 Q-loop/lid; other site 390235013473 ABC transporter signature motif; other site 390235013474 Walker B; other site 390235013475 D-loop; other site 390235013476 H-loop/switch region; other site 390235013477 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 390235013478 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235013479 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235013480 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 390235013481 Response regulator receiver domain; Region: Response_reg; pfam00072 390235013482 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 390235013483 active site 390235013484 phosphorylation site [posttranslational modification] 390235013485 intermolecular recognition site; other site 390235013486 dimerization interface [polypeptide binding]; other site 390235013487 Flagellin N-methylase; Region: FliB; pfam03692 390235013488 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235013489 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 390235013490 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 390235013491 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235013492 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 390235013493 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235013494 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 390235013495 active site 390235013496 phosphorylation site [posttranslational modification] 390235013497 intermolecular recognition site; other site 390235013498 dimerization interface [polypeptide binding]; other site 390235013499 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 390235013500 DNA binding site [nucleotide binding] 390235013501 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235013502 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 390235013503 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 390235013504 dimer interface [polypeptide binding]; other site 390235013505 phosphorylation site [posttranslational modification] 390235013506 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 390235013507 ATP binding site [chemical binding]; other site 390235013508 G-X-G motif; other site 390235013509 outer membrane porin, OprD family; Region: OprD; pfam03573 390235013510 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235013511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235013512 metal binding site [ion binding]; metal-binding site 390235013513 active site 390235013514 I-site; other site 390235013515 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 390235013516 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 390235013517 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 390235013518 active site 390235013519 P-loop; other site 390235013520 phosphorylation site [posttranslational modification] 390235013521 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 390235013522 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 390235013523 active site 390235013524 P-loop; other site 390235013525 phosphorylation site [posttranslational modification] 390235013526 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 390235013527 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 390235013528 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 390235013529 putative substrate binding site [chemical binding]; other site 390235013530 putative ATP binding site [chemical binding]; other site 390235013531 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 390235013532 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 390235013533 active site 390235013534 phosphorylation site [posttranslational modification] 390235013535 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 390235013536 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 390235013537 dimerization domain swap beta strand [polypeptide binding]; other site 390235013538 regulatory protein interface [polypeptide binding]; other site 390235013539 active site 390235013540 regulatory phosphorylation site [posttranslational modification]; other site 390235013541 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 390235013542 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 390235013543 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 390235013544 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 390235013545 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 390235013546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 390235013547 DNA binding site [nucleotide binding] 390235013548 domain linker motif; other site 390235013549 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 390235013550 dimerization interface [polypeptide binding]; other site 390235013551 ligand binding site [chemical binding]; other site 390235013552 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 390235013553 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 390235013554 active site 390235013555 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 390235013556 dimerization interface [polypeptide binding]; other site 390235013557 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235013558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235013559 dimer interface [polypeptide binding]; other site 390235013560 putative CheW interface [polypeptide binding]; other site 390235013561 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 390235013562 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 390235013563 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 390235013564 amidase catalytic site [active] 390235013565 Zn binding residues [ion binding]; other site 390235013566 substrate binding site [chemical binding]; other site 390235013567 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 390235013568 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 390235013569 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 390235013570 dimerization interface [polypeptide binding]; other site 390235013571 active site 390235013572 thioredoxin reductase; Provisional; Region: PRK10262 390235013573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 390235013574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235013575 putative sulfate transport protein CysZ; Validated; Region: PRK04949 390235013576 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 390235013577 PAS domain; Region: PAS_9; pfam13426 390235013578 putative active site [active] 390235013579 heme pocket [chemical binding]; other site 390235013580 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 390235013581 PAS domain; Region: PAS_9; pfam13426 390235013582 putative active site [active] 390235013583 heme pocket [chemical binding]; other site 390235013584 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235013585 dimer interface [polypeptide binding]; other site 390235013586 putative CheW interface [polypeptide binding]; other site 390235013587 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 390235013588 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 390235013589 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 390235013590 putative active site [active] 390235013591 putative FMN binding site [chemical binding]; other site 390235013592 putative substrate binding site [chemical binding]; other site 390235013593 putative catalytic residue [active] 390235013594 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 390235013595 catalytic residues [active] 390235013596 dimer interface [polypeptide binding]; other site 390235013597 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 390235013598 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235013599 phosphate acetyltransferase; Reviewed; Region: PRK05632 390235013600 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 390235013601 DRTGG domain; Region: DRTGG; pfam07085 390235013602 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 390235013603 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 390235013604 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235013605 ligand binding site [chemical binding]; other site 390235013606 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 390235013607 toxin ChpB; Provisional; Region: PRK09812 390235013608 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 390235013609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 390235013610 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 390235013611 ATP binding site [chemical binding]; other site 390235013612 Mg2+ binding site [ion binding]; other site 390235013613 G-X-G motif; other site 390235013614 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 390235013615 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 390235013616 active site 390235013617 phosphorylation site [posttranslational modification] 390235013618 intermolecular recognition site; other site 390235013619 dimerization interface [polypeptide binding]; other site 390235013620 TPR repeat; Region: TPR_11; pfam13414 390235013621 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 390235013622 TPR motif; other site 390235013623 binding surface 390235013624 TPR repeat; Region: TPR_11; pfam13414 390235013625 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 390235013626 binding surface 390235013627 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 390235013628 AAA ATPase domain; Region: AAA_16; pfam13191 390235013629 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 390235013630 DNA binding residues [nucleotide binding] 390235013631 dimerization interface [polypeptide binding]; other site 390235013632 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 390235013633 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 390235013634 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 390235013635 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235013636 acyl-activating enzyme (AAE) consensus motif; other site 390235013637 AMP binding site [chemical binding]; other site 390235013638 active site 390235013639 CoA binding site [chemical binding]; other site 390235013640 glycerate dehydrogenase; Provisional; Region: PRK06487 390235013641 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 390235013642 putative ligand binding site [chemical binding]; other site 390235013643 putative NAD binding site [chemical binding]; other site 390235013644 catalytic site [active] 390235013645 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 390235013646 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 390235013647 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 390235013648 S-adenosylmethionine binding site [chemical binding]; other site 390235013649 Predicted membrane protein [Function unknown]; Region: COG2119 390235013650 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 390235013651 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 390235013652 Peptidase family M48; Region: Peptidase_M48; pfam01435 390235013653 Uncharacterized conserved protein [Function unknown]; Region: COG2135 390235013654 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 390235013655 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 390235013656 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 390235013657 putative acyl-acceptor binding pocket; other site 390235013658 hypothetical protein; Provisional; Region: PRK11627 390235013659 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 390235013660 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 390235013661 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 390235013662 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235013663 active site 390235013664 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235013665 active site 390235013666 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 390235013667 ferrochelatase; Reviewed; Region: hemH; PRK00035 390235013668 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 390235013669 C-terminal domain interface [polypeptide binding]; other site 390235013670 active site 390235013671 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 390235013672 active site 390235013673 N-terminal domain interface [polypeptide binding]; other site 390235013674 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 390235013675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235013676 NAD(P) binding site [chemical binding]; other site 390235013677 active site 390235013678 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 390235013679 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 390235013680 Protein of unknown function (DUF523); Region: DUF523; pfam04463 390235013681 Uncharacterized conserved protein [Function unknown]; Region: COG3272 390235013682 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 390235013683 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 390235013684 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 390235013685 DNA binding residues [nucleotide binding] 390235013686 B12 binding domain; Region: B12-binding_2; pfam02607 390235013687 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 390235013688 DNA photolyase; Region: DNA_photolyase; pfam00875 390235013689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235013690 NAD(P) binding site [chemical binding]; other site 390235013691 active site 390235013692 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 390235013693 glutamate racemase; Provisional; Region: PRK00865 390235013694 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 390235013695 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 390235013696 ATP binding site [chemical binding]; other site 390235013697 substrate interface [chemical binding]; other site 390235013698 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 390235013699 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 390235013700 peptide chain release factor 1; Validated; Region: prfA; PRK00591 390235013701 This domain is found in peptide chain release factors; Region: PCRF; smart00937 390235013702 RF-1 domain; Region: RF-1; pfam00472 390235013703 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 390235013704 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 390235013705 tRNA; other site 390235013706 putative tRNA binding site [nucleotide binding]; other site 390235013707 putative NADP binding site [chemical binding]; other site 390235013708 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 390235013709 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 390235013710 TPR motif; other site 390235013711 binding surface 390235013712 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 390235013713 binding surface 390235013714 TPR motif; other site 390235013715 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 390235013716 binding surface 390235013717 TPR motif; other site 390235013718 Tetratricopeptide repeat; Region: TPR_12; pfam13424 390235013719 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 390235013720 binding surface 390235013721 TPR motif; other site 390235013722 Tetratricopeptide repeat; Region: TPR_16; pfam13432 390235013723 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 390235013724 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 390235013725 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 390235013726 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 390235013727 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 390235013728 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 390235013729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235013730 active site 390235013731 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 390235013732 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 390235013733 5S rRNA interface [nucleotide binding]; other site 390235013734 CTC domain interface [polypeptide binding]; other site 390235013735 L16 interface [polypeptide binding]; other site 390235013736 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 390235013737 putative active site [active] 390235013738 catalytic residue [active] 390235013739 GTP-binding protein YchF; Reviewed; Region: PRK09601 390235013740 YchF GTPase; Region: YchF; cd01900 390235013741 G1 box; other site 390235013742 GTP/Mg2+ binding site [chemical binding]; other site 390235013743 Switch I region; other site 390235013744 G2 box; other site 390235013745 Switch II region; other site 390235013746 G3 box; other site 390235013747 G4 box; other site 390235013748 G5 box; other site 390235013749 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 390235013750 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 390235013751 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 390235013752 Sulfate transporter family; Region: Sulfate_transp; pfam00916 390235013753 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 390235013754 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 390235013755 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 390235013756 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235013757 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235013758 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 390235013759 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 390235013760 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 390235013761 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 390235013762 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 390235013763 Isochorismatase family; Region: Isochorismatase; pfam00857 390235013764 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 390235013765 catalytic triad [active] 390235013766 dimer interface [polypeptide binding]; other site 390235013767 conserved cis-peptide bond; other site 390235013768 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 390235013769 SnoaL-like domain; Region: SnoaL_3; pfam13474 390235013770 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 390235013771 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 390235013772 Na binding site [ion binding]; other site 390235013773 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 390235013774 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 390235013775 NAD(P) binding site [chemical binding]; other site 390235013776 catalytic residues [active] 390235013777 catalytic residues [active] 390235013778 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 390235013779 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 390235013780 Mechanosensitive ion channel; Region: MS_channel; pfam00924 390235013781 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 390235013782 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 390235013783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235013784 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 390235013785 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 390235013786 DNA binding site [nucleotide binding] 390235013787 active site 390235013788 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 390235013789 endonuclease III; Region: ENDO3c; smart00478 390235013790 minor groove reading motif; other site 390235013791 helix-hairpin-helix signature motif; other site 390235013792 substrate binding pocket [chemical binding]; other site 390235013793 active site 390235013794 RNA polymerase sigma factor; Provisional; Region: PRK12528 390235013795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235013796 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 390235013797 DNA binding residues [nucleotide binding] 390235013798 fec operon regulator FecR; Reviewed; Region: PRK09774 390235013799 FecR protein; Region: FecR; pfam04773 390235013800 Secretin and TonB N terminus short domain; Region: STN; smart00965 390235013801 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 390235013802 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 390235013803 N-terminal plug; other site 390235013804 ligand-binding site [chemical binding]; other site 390235013805 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 390235013806 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235013807 putative substrate translocation pore; other site 390235013808 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 390235013809 putative substrate translocation pore; other site 390235013810 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235013811 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235013812 FecR protein; Region: FecR; pfam04773 390235013813 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 390235013814 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235013815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235013816 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 390235013817 dimerization interface [polypeptide binding]; other site 390235013818 Peptidase M15; Region: Peptidase_M15_3; cl01194 390235013819 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 390235013820 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 390235013821 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 390235013822 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 390235013823 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 390235013824 hypothetical protein; Provisional; Region: PRK10756 390235013825 CreA protein; Region: CreA; pfam05981 390235013826 gamma-glutamyl kinase; Provisional; Region: PRK05429 390235013827 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 390235013828 nucleotide binding site [chemical binding]; other site 390235013829 homotetrameric interface [polypeptide binding]; other site 390235013830 putative phosphate binding site [ion binding]; other site 390235013831 putative allosteric binding site; other site 390235013832 PUA domain; Region: PUA; pfam01472 390235013833 GTPase CgtA; Reviewed; Region: obgE; PRK12298 390235013834 GTP1/OBG; Region: GTP1_OBG; pfam01018 390235013835 Obg GTPase; Region: Obg; cd01898 390235013836 G1 box; other site 390235013837 GTP/Mg2+ binding site [chemical binding]; other site 390235013838 Switch I region; other site 390235013839 G2 box; other site 390235013840 G3 box; other site 390235013841 Switch II region; other site 390235013842 G4 box; other site 390235013843 G5 box; other site 390235013844 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 390235013845 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 390235013846 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 390235013847 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 390235013848 substrate binding pocket [chemical binding]; other site 390235013849 chain length determination region; other site 390235013850 substrate-Mg2+ binding site; other site 390235013851 catalytic residues [active] 390235013852 aspartate-rich region 1; other site 390235013853 active site lid residues [active] 390235013854 aspartate-rich region 2; other site 390235013855 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 390235013856 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 390235013857 PhnA protein; Region: PhnA; pfam03831 390235013858 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 390235013859 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 390235013860 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235013861 hypothetical protein; Provisional; Region: PRK05208 390235013862 AAA domain; Region: AAA_32; pfam13654 390235013863 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 390235013864 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 390235013865 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 390235013866 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 390235013867 transcription elongation factor regulatory protein; Validated; Region: PRK06342 390235013868 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 390235013869 glutamate dehydrogenase; Provisional; Region: PRK09414 390235013870 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 390235013871 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 390235013872 NAD(P) binding site [chemical binding]; other site 390235013873 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 390235013874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235013875 Walker A/P-loop; other site 390235013876 ATP binding site [chemical binding]; other site 390235013877 Q-loop/lid; other site 390235013878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235013879 ABC transporter signature motif; other site 390235013880 Walker B; other site 390235013881 D-loop; other site 390235013882 ABC transporter; Region: ABC_tran_2; pfam12848 390235013883 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 390235013884 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 390235013885 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 390235013886 putative active site [active] 390235013887 heme pocket [chemical binding]; other site 390235013888 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 390235013889 putative active site [active] 390235013890 heme pocket [chemical binding]; other site 390235013891 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 390235013892 putative active site [active] 390235013893 heme pocket [chemical binding]; other site 390235013894 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235013895 metal binding site [ion binding]; metal-binding site 390235013896 active site 390235013897 I-site; other site 390235013898 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 390235013899 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 390235013900 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 390235013901 dimer interface [polypeptide binding]; other site 390235013902 active site 390235013903 glycine-pyridoxal phosphate binding site [chemical binding]; other site 390235013904 folate binding site [chemical binding]; other site 390235013905 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 390235013906 Sodium Bile acid symporter family; Region: SBF; cl17470 390235013907 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 390235013908 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 390235013909 putative substrate translocation pore; other site 390235013910 Thermostable hemolysin; Region: T_hemolysin; pfam12261 390235013911 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 390235013912 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 390235013913 acyl-activating enzyme (AAE) consensus motif; other site 390235013914 AMP binding site [chemical binding]; other site 390235013915 active site 390235013916 CoA binding site [chemical binding]; other site 390235013917 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 390235013918 active site 390235013919 iron coordination sites [ion binding]; other site 390235013920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235013921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235013922 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 390235013923 substrate binding pocket [chemical binding]; other site 390235013924 dimerization interface [polypeptide binding]; other site 390235013925 MarR family; Region: MarR_2; cl17246 390235013926 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235013927 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 390235013928 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 390235013929 TAP-like protein; Region: Abhydrolase_4; pfam08386 390235013930 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 390235013931 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 390235013932 putative substrate translocation pore; other site 390235013933 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 390235013934 Transposase, Mutator family; Region: Transposase_mut; pfam00872 390235013935 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 390235013936 outer membrane porin, OprD family; Region: OprD; pfam03573 390235013937 Cupin domain; Region: Cupin_2; pfam07883 390235013938 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 390235013939 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235013940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235013941 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 390235013942 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235013943 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235013944 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 390235013945 D-galactonate transporter; Region: 2A0114; TIGR00893 390235013946 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 390235013947 putative substrate translocation pore; other site 390235013948 multiple promoter invertase; Provisional; Region: mpi; PRK13413 390235013949 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 390235013950 catalytic residues [active] 390235013951 catalytic nucleophile [active] 390235013952 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 390235013953 active site 390235013954 DNA binding site [nucleotide binding] 390235013955 Int/Topo IB signature motif; other site 390235013956 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 390235013957 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 390235013958 Pilin (bacterial filament); Region: Pilin; pfam00114 390235013959 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 390235013960 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235013961 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 390235013962 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 390235013963 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 390235013964 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 390235013965 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 390235013966 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 390235013967 CoA-binding site [chemical binding]; other site 390235013968 ATP-binding [chemical binding]; other site 390235013969 DNA gyrase inhibitor; Reviewed; Region: PRK00418 390235013970 Predicted membrane protein [Function unknown]; Region: COG3235 390235013971 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 390235013972 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 390235013973 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 390235013974 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235013975 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 390235013976 Clp amino terminal domain; Region: Clp_N; pfam02861 390235013977 Clp amino terminal domain; Region: Clp_N; pfam02861 390235013978 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 390235013979 Walker A motif; other site 390235013980 ATP binding site [chemical binding]; other site 390235013981 Walker B motif; other site 390235013982 arginine finger; other site 390235013983 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 390235013984 Walker A motif; other site 390235013985 ATP binding site [chemical binding]; other site 390235013986 Walker B motif; other site 390235013987 arginine finger; other site 390235013988 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 390235013989 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 390235013990 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 390235013991 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 390235013992 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 390235013993 RNA binding surface [nucleotide binding]; other site 390235013994 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 390235013995 active site 390235013996 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 390235013997 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 390235013998 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 390235013999 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 390235014000 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 390235014001 Type II transport protein GspH; Region: GspH; pfam12019 390235014002 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 390235014003 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 390235014004 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 390235014005 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 390235014006 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 390235014007 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 390235014008 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 390235014009 active site 390235014010 HIGH motif; other site 390235014011 nucleotide binding site [chemical binding]; other site 390235014012 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 390235014013 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 390235014014 active site 390235014015 KMSKS motif; other site 390235014016 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 390235014017 tRNA binding surface [nucleotide binding]; other site 390235014018 anticodon binding site; other site 390235014019 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 390235014020 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 390235014021 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 390235014022 active site 390235014023 Riboflavin kinase; Region: Flavokinase; pfam01687 390235014024 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 390235014025 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 390235014026 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 390235014027 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 390235014028 mce related protein; Region: MCE; pfam02470 390235014029 mce related protein; Region: MCE; pfam02470 390235014030 mce related protein; Region: MCE; pfam02470 390235014031 mce related protein; Region: MCE; pfam02470 390235014032 mce related protein; Region: MCE; pfam02470 390235014033 mce related protein; Region: MCE; pfam02470 390235014034 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 390235014035 Paraquat-inducible protein A; Region: PqiA; pfam04403 390235014036 Paraquat-inducible protein A; Region: PqiA; pfam04403 390235014037 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 390235014038 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 390235014039 tetrameric interface [polypeptide binding]; other site 390235014040 NAD binding site [chemical binding]; other site 390235014041 catalytic residues [active] 390235014042 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 390235014043 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 390235014044 inhibitor-cofactor binding pocket; inhibition site 390235014045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235014046 catalytic residue [active] 390235014047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235014048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235014049 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 390235014050 dimerization interface [polypeptide binding]; other site 390235014051 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 390235014052 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235014053 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 390235014054 Uncharacterized conserved protein [Function unknown]; Region: COG1739 390235014055 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 390235014056 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 390235014057 short chain dehydrogenase; Provisional; Region: PRK08177 390235014058 C factor cell-cell signaling protein; Provisional; Region: PRK09009 390235014059 NAD(P) binding site [chemical binding]; other site 390235014060 active site 390235014061 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 390235014062 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 390235014063 active site 390235014064 purine riboside binding site [chemical binding]; other site 390235014065 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 390235014066 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 390235014067 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 390235014068 putative substrate translocation pore; other site 390235014069 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 390235014070 metal-binding site [ion binding] 390235014071 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 390235014072 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 390235014073 metal-binding site [ion binding] 390235014074 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 390235014075 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 390235014076 metal-binding site [ion binding] 390235014077 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 390235014078 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 390235014079 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 390235014080 DNA binding residues [nucleotide binding] 390235014081 dimer interface [polypeptide binding]; other site 390235014082 copper binding site [ion binding]; other site 390235014083 Cache domain; Region: Cache_1; pfam02743 390235014084 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 390235014085 dimerization interface [polypeptide binding]; other site 390235014086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235014087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235014088 dimer interface [polypeptide binding]; other site 390235014089 putative CheW interface [polypeptide binding]; other site 390235014090 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235014091 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 390235014092 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 390235014093 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 390235014094 dimer interface [polypeptide binding]; other site 390235014095 active site 390235014096 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 390235014097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 390235014098 NAD(P) binding site [chemical binding]; other site 390235014099 active site 390235014100 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 390235014101 active site 2 [active] 390235014102 active site 1 [active] 390235014103 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 390235014104 homodimer interface [polypeptide binding]; other site 390235014105 chemical substrate binding site [chemical binding]; other site 390235014106 oligomer interface [polypeptide binding]; other site 390235014107 metal binding site [ion binding]; metal-binding site 390235014108 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 390235014109 S-adenosylmethionine binding site [chemical binding]; other site 390235014110 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 390235014111 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 390235014112 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 390235014113 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235014114 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 390235014115 active site 390235014116 phosphorylation site [posttranslational modification] 390235014117 intermolecular recognition site; other site 390235014118 dimerization interface [polypeptide binding]; other site 390235014119 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 390235014120 DNA binding residues [nucleotide binding] 390235014121 dimerization interface [polypeptide binding]; other site 390235014122 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 390235014123 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 390235014124 penicillin-binding protein 1C; Provisional; Region: PRK11240 390235014125 Transglycosylase; Region: Transgly; pfam00912 390235014126 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 390235014127 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 390235014128 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 390235014129 MG2 domain; Region: A2M_N; pfam01835 390235014130 Alpha-2-macroglobulin family; Region: A2M; pfam00207 390235014131 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 390235014132 surface patch; other site 390235014133 thioester region; other site 390235014134 specificity defining residues; other site 390235014135 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 390235014136 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 390235014137 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 390235014138 Transposase IS200 like; Region: Y1_Tnp; pfam01797 390235014139 arginine decarboxylase; Provisional; Region: PRK05354 390235014140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 390235014141 dimer interface [polypeptide binding]; other site 390235014142 active site 390235014143 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 390235014144 catalytic residues [active] 390235014145 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 390235014146 translation initiation factor Sui1; Validated; Region: PRK06824 390235014147 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 390235014148 putative rRNA binding site [nucleotide binding]; other site 390235014149 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 390235014150 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 390235014151 nudix motif; other site 390235014152 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 390235014153 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 390235014154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 390235014155 active site 390235014156 phosphorylation site [posttranslational modification] 390235014157 intermolecular recognition site; other site 390235014158 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 390235014159 active site 390235014160 phosphorylation site [posttranslational modification] 390235014161 intermolecular recognition site; other site 390235014162 dimerization interface [polypeptide binding]; other site 390235014163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235014164 metal binding site [ion binding]; metal-binding site 390235014165 active site 390235014166 I-site; other site 390235014167 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 390235014168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235014169 dimer interface [polypeptide binding]; other site 390235014170 putative CheW interface [polypeptide binding]; other site 390235014171 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 390235014172 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 390235014173 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 390235014174 DsbD alpha interface [polypeptide binding]; other site 390235014175 catalytic residues [active] 390235014176 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 390235014177 Dehydroquinase class II; Region: DHquinase_II; pfam01220 390235014178 trimer interface [polypeptide binding]; other site 390235014179 active site 390235014180 dimer interface [polypeptide binding]; other site 390235014181 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 390235014182 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 390235014183 carboxyltransferase (CT) interaction site; other site 390235014184 biotinylation site [posttranslational modification]; other site 390235014185 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 390235014186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 390235014187 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 390235014188 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 390235014189 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 390235014190 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 390235014191 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 390235014192 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 390235014193 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 390235014194 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 390235014195 FMN binding site [chemical binding]; other site 390235014196 active site 390235014197 catalytic residues [active] 390235014198 substrate binding site [chemical binding]; other site 390235014199 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 390235014200 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 390235014201 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 390235014202 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 390235014203 purine monophosphate binding site [chemical binding]; other site 390235014204 dimer interface [polypeptide binding]; other site 390235014205 putative catalytic residues [active] 390235014206 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 390235014207 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 390235014208 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 390235014209 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 390235014210 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 390235014211 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 390235014212 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 390235014213 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 390235014214 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 390235014215 dimer interface [polypeptide binding]; other site 390235014216 phosphorylation site [posttranslational modification] 390235014217 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 390235014218 ATP binding site [chemical binding]; other site 390235014219 Mg2+ binding site [ion binding]; other site 390235014220 G-X-G motif; other site 390235014221 Response regulator receiver domain; Region: Response_reg; pfam00072 390235014222 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 390235014223 active site 390235014224 phosphorylation site [posttranslational modification] 390235014225 intermolecular recognition site; other site 390235014226 dimerization interface [polypeptide binding]; other site 390235014227 Response regulator receiver domain; Region: Response_reg; pfam00072 390235014228 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 390235014229 active site 390235014230 phosphorylation site [posttranslational modification] 390235014231 intermolecular recognition site; other site 390235014232 dimerization interface [polypeptide binding]; other site 390235014233 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 390235014234 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 390235014235 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 390235014236 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 390235014237 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 390235014238 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 390235014239 active site 390235014240 SAM binding site [chemical binding]; other site 390235014241 homodimer interface [polypeptide binding]; other site 390235014242 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 390235014243 homodimer interface [polypeptide binding]; other site 390235014244 active site 390235014245 SAM binding site [chemical binding]; other site 390235014246 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 390235014247 Precorrin-8X methylmutase; Region: CbiC; pfam02570 390235014248 precorrin-3B synthase; Region: CobG; TIGR02435 390235014249 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 390235014250 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 390235014251 active site 390235014252 putative homodimer interface [polypeptide binding]; other site 390235014253 SAM binding site [chemical binding]; other site 390235014254 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 390235014255 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 390235014256 S-adenosylmethionine binding site [chemical binding]; other site 390235014257 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 390235014258 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 390235014259 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 390235014260 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 390235014261 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 390235014262 oligomeric interface; other site 390235014263 putative active site [active] 390235014264 homodimer interface [polypeptide binding]; other site 390235014265 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 390235014266 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 390235014267 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 390235014268 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 390235014269 Protein of unknown function (DUF461); Region: DUF461; pfam04314 390235014270 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 390235014271 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 390235014272 N-terminal plug; other site 390235014273 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 390235014274 ligand-binding site [chemical binding]; other site 390235014275 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235014276 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 390235014277 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 390235014278 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235014279 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 390235014280 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 390235014281 Spore germination protein; Region: Spore_permease; cl17796 390235014282 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 390235014283 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 390235014284 putative ligand binding site [chemical binding]; other site 390235014285 HEAT repeats; Region: HEAT_2; pfam13646 390235014286 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 390235014287 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235014288 TM-ABC transporter signature motif; other site 390235014289 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 390235014290 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 390235014291 TM-ABC transporter signature motif; other site 390235014292 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 390235014293 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 390235014294 Walker A/P-loop; other site 390235014295 ATP binding site [chemical binding]; other site 390235014296 Q-loop/lid; other site 390235014297 ABC transporter signature motif; other site 390235014298 Walker B; other site 390235014299 D-loop; other site 390235014300 H-loop/switch region; other site 390235014301 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 390235014302 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 390235014303 Walker A/P-loop; other site 390235014304 ATP binding site [chemical binding]; other site 390235014305 Q-loop/lid; other site 390235014306 ABC transporter signature motif; other site 390235014307 Walker B; other site 390235014308 D-loop; other site 390235014309 H-loop/switch region; other site 390235014310 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 390235014311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235014312 Coenzyme A binding pocket [chemical binding]; other site 390235014313 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 390235014314 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 390235014315 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 390235014316 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 390235014317 HSP70 interaction site [polypeptide binding]; other site 390235014318 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 390235014319 substrate binding site [polypeptide binding]; other site 390235014320 dimer interface [polypeptide binding]; other site 390235014321 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 390235014322 putative chaperone; Provisional; Region: PRK11678 390235014323 nucleotide binding site [chemical binding]; other site 390235014324 putative NEF/HSP70 interaction site [polypeptide binding]; other site 390235014325 SBD interface [polypeptide binding]; other site 390235014326 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 390235014327 psiF repeat; Region: PsiF_repeat; pfam07769 390235014328 psiF repeat; Region: PsiF_repeat; pfam07769 390235014329 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 390235014330 Helix-turn-helix domain; Region: HTH_18; pfam12833 390235014331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235014332 EamA-like transporter family; Region: EamA; pfam00892 390235014333 EamA-like transporter family; Region: EamA; pfam00892 390235014334 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 390235014335 Lipase (class 2); Region: Lipase_2; pfam01674 390235014336 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 390235014337 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 390235014338 Ferritin-like domain; Region: Ferritin; pfam00210 390235014339 dinuclear metal binding motif [ion binding]; other site 390235014340 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 390235014341 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 390235014342 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 390235014343 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235014344 active site 390235014345 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 390235014346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235014347 dimerization interface [polypeptide binding]; other site 390235014348 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 390235014349 putative active cleft [active] 390235014350 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 390235014351 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 390235014352 putative NAD(P) binding site [chemical binding]; other site 390235014353 homotetramer interface [polypeptide binding]; other site 390235014354 homodimer interface [polypeptide binding]; other site 390235014355 active site 390235014356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 390235014357 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 390235014358 Walker A/P-loop; other site 390235014359 ATP binding site [chemical binding]; other site 390235014360 Q-loop/lid; other site 390235014361 ABC transporter signature motif; other site 390235014362 Walker B; other site 390235014363 D-loop; other site 390235014364 H-loop/switch region; other site 390235014365 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 390235014366 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 390235014367 Walker A/P-loop; other site 390235014368 ATP binding site [chemical binding]; other site 390235014369 Q-loop/lid; other site 390235014370 ABC transporter signature motif; other site 390235014371 Walker B; other site 390235014372 D-loop; other site 390235014373 H-loop/switch region; other site 390235014374 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 390235014375 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 390235014376 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 390235014377 TM-ABC transporter signature motif; other site 390235014378 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 390235014379 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 390235014380 TM-ABC transporter signature motif; other site 390235014381 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 390235014382 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 390235014383 dimerization interface [polypeptide binding]; other site 390235014384 ligand binding site [chemical binding]; other site 390235014385 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 390235014386 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 390235014387 active site 390235014388 NAD synthase; Region: NAD_synthase; pfam02540 390235014389 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 390235014390 homodimer interface [polypeptide binding]; other site 390235014391 NAD binding pocket [chemical binding]; other site 390235014392 ATP binding pocket [chemical binding]; other site 390235014393 Mg binding site [ion binding]; other site 390235014394 active-site loop [active] 390235014395 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 390235014396 hypothetical protein; Provisional; Region: PRK01254 390235014397 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 390235014398 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 390235014399 replicative DNA helicase; Provisional; Region: PRK05748 390235014400 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 390235014401 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 390235014402 Walker A motif; other site 390235014403 ATP binding site [chemical binding]; other site 390235014404 Walker B motif; other site 390235014405 DNA binding loops [nucleotide binding] 390235014406 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 390235014407 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 390235014408 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 390235014409 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 390235014410 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 390235014411 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 390235014412 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 390235014413 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 390235014414 ribonuclease R; Region: RNase_R; TIGR02063 390235014415 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 390235014416 RNB domain; Region: RNB; pfam00773 390235014417 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 390235014418 RNA binding site [nucleotide binding]; other site 390235014419 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 390235014420 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 390235014421 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 390235014422 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 390235014423 dimer interface [polypeptide binding]; other site 390235014424 conserved gate region; other site 390235014425 putative PBP binding loops; other site 390235014426 ABC-ATPase subunit interface; other site 390235014427 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 390235014428 dimer interface [polypeptide binding]; other site 390235014429 conserved gate region; other site 390235014430 putative PBP binding loops; other site 390235014431 ABC-ATPase subunit interface; other site 390235014432 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 390235014433 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 390235014434 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 390235014435 dimerization interface [polypeptide binding]; other site 390235014436 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235014437 dimer interface [polypeptide binding]; other site 390235014438 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 390235014439 putative CheW interface [polypeptide binding]; other site 390235014440 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 390235014441 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 390235014442 GDP-binding site [chemical binding]; other site 390235014443 ACT binding site; other site 390235014444 IMP binding site; other site 390235014445 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 390235014446 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 390235014447 dimer interface [polypeptide binding]; other site 390235014448 motif 1; other site 390235014449 active site 390235014450 motif 2; other site 390235014451 motif 3; other site 390235014452 FtsH protease regulator HflC; Provisional; Region: PRK11029 390235014453 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 390235014454 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 390235014455 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 390235014456 HflK protein; Region: hflK; TIGR01933 390235014457 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 390235014458 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 390235014459 HflX GTPase family; Region: HflX; cd01878 390235014460 G1 box; other site 390235014461 GTP/Mg2+ binding site [chemical binding]; other site 390235014462 Switch I region; other site 390235014463 G2 box; other site 390235014464 G3 box; other site 390235014465 Switch II region; other site 390235014466 G4 box; other site 390235014467 G5 box; other site 390235014468 bacterial Hfq-like; Region: Hfq; cd01716 390235014469 hexamer interface [polypeptide binding]; other site 390235014470 Sm1 motif; other site 390235014471 RNA binding site [nucleotide binding]; other site 390235014472 Sm2 motif; other site 390235014473 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 390235014474 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 390235014475 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 390235014476 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 390235014477 ATP binding site [chemical binding]; other site 390235014478 Mg2+ binding site [ion binding]; other site 390235014479 G-X-G motif; other site 390235014480 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 390235014481 ATP binding site [chemical binding]; other site 390235014482 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 390235014483 AMIN domain; Region: AMIN; pfam11741 390235014484 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 390235014485 active site 390235014486 metal binding site [ion binding]; metal-binding site 390235014487 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235014488 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 390235014489 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 390235014490 putative substrate binding site [chemical binding]; other site 390235014491 putative ATP binding site [chemical binding]; other site 390235014492 epoxyqueuosine reductase; Region: TIGR00276 390235014493 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 390235014494 Predicted membrane protein [Function unknown]; Region: COG2860 390235014495 UPF0126 domain; Region: UPF0126; pfam03458 390235014496 UPF0126 domain; Region: UPF0126; pfam03458 390235014497 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 390235014498 catalytic site [active] 390235014499 putative active site [active] 390235014500 putative substrate binding site [chemical binding]; other site 390235014501 dimer interface [polypeptide binding]; other site 390235014502 GTPase RsgA; Reviewed; Region: PRK12288 390235014503 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 390235014504 RNA binding site [nucleotide binding]; other site 390235014505 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 390235014506 GTPase/Zn-binding domain interface [polypeptide binding]; other site 390235014507 GTP/Mg2+ binding site [chemical binding]; other site 390235014508 G4 box; other site 390235014509 G5 box; other site 390235014510 G1 box; other site 390235014511 Switch I region; other site 390235014512 G2 box; other site 390235014513 G3 box; other site 390235014514 Switch II region; other site 390235014515 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 390235014516 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 390235014517 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 390235014518 ligand binding site [chemical binding]; other site 390235014519 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 390235014520 flagellar motor protein MotA; Validated; Region: PRK09110 390235014521 HDOD domain; Region: HDOD; pfam08668 390235014522 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 390235014523 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 390235014524 active site residue [active] 390235014525 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 390235014526 active site residue [active] 390235014527 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 390235014528 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 390235014529 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 390235014530 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 390235014531 phosphoserine phosphatase SerB; Region: serB; TIGR00338 390235014532 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 390235014533 motif II; other site 390235014534 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 390235014535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 390235014536 Protein of unknown function (DUF330); Region: DUF330; pfam03886 390235014537 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 390235014538 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 390235014539 CAP-like domain; other site 390235014540 active site 390235014541 primary dimer interface [polypeptide binding]; other site 390235014542 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 390235014543 catalytic motif [active] 390235014544 Catalytic residue [active] 390235014545 SdiA-regulated; Region: SdiA-regulated; cd09971 390235014546 putative active site [active] 390235014547 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 390235014548 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 390235014549 ATP binding site [chemical binding]; other site 390235014550 Mg2+ binding site [ion binding]; other site 390235014551 G-X-G motif; other site 390235014552 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 390235014553 anchoring element; other site 390235014554 dimer interface [polypeptide binding]; other site 390235014555 ATP binding site [chemical binding]; other site 390235014556 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 390235014557 active site 390235014558 metal binding site [ion binding]; metal-binding site 390235014559 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 390235014560 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 390235014561 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 390235014562 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 390235014563 active site 390235014564 metal binding site [ion binding]; metal-binding site 390235014565 hexamer interface [polypeptide binding]; other site 390235014566 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 390235014567 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 390235014568 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 390235014569 dimer interface [polypeptide binding]; other site 390235014570 ADP-ribose binding site [chemical binding]; other site 390235014571 active site 390235014572 nudix motif; other site 390235014573 metal binding site [ion binding]; metal-binding site 390235014574 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 390235014575 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 390235014576 Na binding site [ion binding]; other site 390235014577 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 390235014578 ThiC-associated domain; Region: ThiC-associated; pfam13667 390235014579 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 390235014580 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 390235014581 Domain of unknown function (DUF336); Region: DUF336; cl01249 390235014582 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 390235014583 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 390235014584 dimer interface [polypeptide binding]; other site 390235014585 ssDNA binding site [nucleotide binding]; other site 390235014586 tetramer (dimer of dimers) interface [polypeptide binding]; other site 390235014587 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 390235014588 Major Facilitator Superfamily; Region: MFS_1; pfam07690 390235014589 putative substrate translocation pore; other site 390235014590 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 390235014591 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 390235014592 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 390235014593 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 390235014594 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 390235014595 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 390235014596 heme binding site [chemical binding]; other site 390235014597 ferroxidase pore; other site 390235014598 ferroxidase diiron center [ion binding]; other site 390235014599 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 390235014600 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 390235014601 tetramer interface [polypeptide binding]; other site 390235014602 heme binding pocket [chemical binding]; other site 390235014603 NADPH binding site [chemical binding]; other site 390235014604 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 390235014605 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 390235014606 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 390235014607 alphaNTD homodimer interface [polypeptide binding]; other site 390235014608 alphaNTD - beta interaction site [polypeptide binding]; other site 390235014609 alphaNTD - beta' interaction site [polypeptide binding]; other site 390235014610 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 390235014611 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 390235014612 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 390235014613 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 390235014614 RNA binding surface [nucleotide binding]; other site 390235014615 30S ribosomal protein S11; Validated; Region: PRK05309 390235014616 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 390235014617 30S ribosomal protein S13; Region: bact_S13; TIGR03631 390235014618 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 390235014619 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 390235014620 SecY translocase; Region: SecY; pfam00344 390235014621 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 390235014622 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 390235014623 23S rRNA binding site [nucleotide binding]; other site 390235014624 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 390235014625 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 390235014626 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 390235014627 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 390235014628 5S rRNA interface [nucleotide binding]; other site 390235014629 23S rRNA interface [nucleotide binding]; other site 390235014630 L5 interface [polypeptide binding]; other site 390235014631 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 390235014632 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 390235014633 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 390235014634 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 390235014635 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 390235014636 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 390235014637 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 390235014638 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 390235014639 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 390235014640 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 390235014641 RNA binding site [nucleotide binding]; other site 390235014642 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 390235014643 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 390235014644 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 390235014645 23S rRNA interface [nucleotide binding]; other site 390235014646 putative translocon interaction site; other site 390235014647 signal recognition particle (SRP54) interaction site; other site 390235014648 L23 interface [polypeptide binding]; other site 390235014649 trigger factor interaction site; other site 390235014650 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 390235014651 23S rRNA interface [nucleotide binding]; other site 390235014652 5S rRNA interface [nucleotide binding]; other site 390235014653 putative antibiotic binding site [chemical binding]; other site 390235014654 L25 interface [polypeptide binding]; other site 390235014655 L27 interface [polypeptide binding]; other site 390235014656 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 390235014657 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 390235014658 G-X-X-G motif; other site 390235014659 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 390235014660 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 390235014661 protein-rRNA interface [nucleotide binding]; other site 390235014662 putative translocon binding site; other site 390235014663 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 390235014664 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 390235014665 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 390235014666 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 390235014667 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 390235014668 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 390235014669 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 390235014670 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 390235014671 elongation factor Tu; Reviewed; Region: PRK00049 390235014672 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 390235014673 G1 box; other site 390235014674 GEF interaction site [polypeptide binding]; other site 390235014675 GTP/Mg2+ binding site [chemical binding]; other site 390235014676 Switch I region; other site 390235014677 G2 box; other site 390235014678 G3 box; other site 390235014679 Switch II region; other site 390235014680 G4 box; other site 390235014681 G5 box; other site 390235014682 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 390235014683 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 390235014684 Antibiotic Binding Site [chemical binding]; other site 390235014685 elongation factor G; Reviewed; Region: PRK00007 390235014686 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 390235014687 G1 box; other site 390235014688 putative GEF interaction site [polypeptide binding]; other site 390235014689 GTP/Mg2+ binding site [chemical binding]; other site 390235014690 Switch I region; other site 390235014691 G2 box; other site 390235014692 G3 box; other site 390235014693 Switch II region; other site 390235014694 G4 box; other site 390235014695 G5 box; other site 390235014696 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 390235014697 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 390235014698 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 390235014699 30S ribosomal protein S7; Validated; Region: PRK05302 390235014700 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 390235014701 S17 interaction site [polypeptide binding]; other site 390235014702 S8 interaction site; other site 390235014703 16S rRNA interaction site [nucleotide binding]; other site 390235014704 streptomycin interaction site [chemical binding]; other site 390235014705 23S rRNA interaction site [nucleotide binding]; other site 390235014706 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 390235014707 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 390235014708 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 390235014709 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 390235014710 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 390235014711 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 390235014712 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 390235014713 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 390235014714 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 390235014715 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 390235014716 DNA binding site [nucleotide binding] 390235014717 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 390235014718 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 390235014719 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 390235014720 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 390235014721 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 390235014722 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 390235014723 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 390235014724 RPB3 interaction site [polypeptide binding]; other site 390235014725 RPB1 interaction site [polypeptide binding]; other site 390235014726 RPB11 interaction site [polypeptide binding]; other site 390235014727 RPB10 interaction site [polypeptide binding]; other site 390235014728 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 390235014729 core dimer interface [polypeptide binding]; other site 390235014730 peripheral dimer interface [polypeptide binding]; other site 390235014731 L10 interface [polypeptide binding]; other site 390235014732 L11 interface [polypeptide binding]; other site 390235014733 putative EF-Tu interaction site [polypeptide binding]; other site 390235014734 putative EF-G interaction site [polypeptide binding]; other site 390235014735 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 390235014736 23S rRNA interface [nucleotide binding]; other site 390235014737 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 390235014738 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 390235014739 mRNA/rRNA interface [nucleotide binding]; other site 390235014740 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 390235014741 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 390235014742 23S rRNA interface [nucleotide binding]; other site 390235014743 L7/L12 interface [polypeptide binding]; other site 390235014744 putative thiostrepton binding site; other site 390235014745 L25 interface [polypeptide binding]; other site 390235014746 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 390235014747 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 390235014748 putative homodimer interface [polypeptide binding]; other site 390235014749 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 390235014750 heterodimer interface [polypeptide binding]; other site 390235014751 homodimer interface [polypeptide binding]; other site 390235014752 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 390235014753 elongation factor Tu; Reviewed; Region: PRK00049 390235014754 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 390235014755 G1 box; other site 390235014756 GEF interaction site [polypeptide binding]; other site 390235014757 GTP/Mg2+ binding site [chemical binding]; other site 390235014758 Switch I region; other site 390235014759 G2 box; other site 390235014760 G3 box; other site 390235014761 Switch II region; other site 390235014762 G4 box; other site 390235014763 G5 box; other site 390235014764 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 390235014765 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 390235014766 Antibiotic Binding Site [chemical binding]; other site 390235014767 pantothenate kinase; Reviewed; Region: PRK13322 390235014768 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 390235014769 Biotin operon repressor [Transcription]; Region: BirA; COG1654 390235014770 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 390235014771 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 390235014772 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 390235014773 active site 390235014774 HIGH motif; other site 390235014775 dimer interface [polypeptide binding]; other site 390235014776 KMSKS motif; other site 390235014777 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; cl09940 390235014778 putative peptidase; Provisional; Region: PRK11649 390235014779 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 390235014780 Peptidase family M23; Region: Peptidase_M23; pfam01551 390235014781 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 390235014782 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 390235014783 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 390235014784 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 390235014785 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 390235014786 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 390235014787 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 390235014788 FMN binding site [chemical binding]; other site 390235014789 substrate binding site [chemical binding]; other site 390235014790 putative catalytic residue [active] 390235014791 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 390235014792 classical (c) SDRs; Region: SDR_c; cd05233 390235014793 NAD(P) binding site [chemical binding]; other site 390235014794 active site 390235014795 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 390235014796 nucleotide binding site/active site [active] 390235014797 HIT family signature motif; other site 390235014798 catalytic residue [active] 390235014799 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 390235014800 diiron binding motif [ion binding]; other site 390235014801 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 390235014802 OsmC-like protein; Region: OsmC; cl00767 390235014803 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 390235014804 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 390235014805 ligand binding site [chemical binding]; other site 390235014806 flexible hinge region; other site 390235014807 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 390235014808 putative switch regulator; other site 390235014809 non-specific DNA interactions [nucleotide binding]; other site 390235014810 DNA binding site [nucleotide binding] 390235014811 sequence specific DNA binding site [nucleotide binding]; other site 390235014812 putative cAMP binding site [chemical binding]; other site 390235014813 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 390235014814 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 390235014815 active site 390235014816 ribulose/triose binding site [chemical binding]; other site 390235014817 phosphate binding site [ion binding]; other site 390235014818 substrate (anthranilate) binding pocket [chemical binding]; other site 390235014819 product (indole) binding pocket [chemical binding]; other site 390235014820 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 390235014821 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 390235014822 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 390235014823 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 390235014824 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 390235014825 glutamine binding [chemical binding]; other site 390235014826 catalytic triad [active] 390235014827 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 390235014828 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 390235014829 active site 390235014830 catalytic triad [active] 390235014831 oxyanion hole [active] 390235014832 Autotransporter beta-domain; Region: Autotransporter; pfam03797 390235014833 anthranilate synthase component I; Provisional; Region: PRK13565 390235014834 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 390235014835 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 390235014836 phosphoglycolate phosphatase; Provisional; Region: PRK13223 390235014837 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 390235014838 motif II; other site 390235014839 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 390235014840 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 390235014841 substrate binding site [chemical binding]; other site 390235014842 hexamer interface [polypeptide binding]; other site 390235014843 metal binding site [ion binding]; metal-binding site 390235014844 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 390235014845 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 390235014846 dimer interface [polypeptide binding]; other site 390235014847 conserved gate region; other site 390235014848 putative PBP binding loops; other site 390235014849 ABC-ATPase subunit interface; other site 390235014850 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 390235014851 dimer interface [polypeptide binding]; other site 390235014852 conserved gate region; other site 390235014853 putative PBP binding loops; other site 390235014854 ABC-ATPase subunit interface; other site 390235014855 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 390235014856 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 390235014857 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 390235014858 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 390235014859 Walker A/P-loop; other site 390235014860 ATP binding site [chemical binding]; other site 390235014861 Q-loop/lid; other site 390235014862 ABC transporter signature motif; other site 390235014863 Walker B; other site 390235014864 D-loop; other site 390235014865 H-loop/switch region; other site 390235014866 TOBE domain; Region: TOBE_2; pfam08402 390235014867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 390235014868 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 390235014869 active site 390235014870 phosphorylation site [posttranslational modification] 390235014871 intermolecular recognition site; other site 390235014872 dimerization interface [polypeptide binding]; other site 390235014873 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 390235014874 DNA binding residues [nucleotide binding] 390235014875 dimerization interface [polypeptide binding]; other site 390235014876 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 390235014877 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235014878 substrate binding pocket [chemical binding]; other site 390235014879 membrane-bound complex binding site; other site 390235014880 hinge residues; other site 390235014881 PAS domain; Region: PAS_9; pfam13426 390235014882 PAS fold; Region: PAS_3; pfam08447 390235014883 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 390235014884 putative active site [active] 390235014885 heme pocket [chemical binding]; other site 390235014886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 390235014887 Histidine kinase; Region: HisKA_3; pfam07730 390235014888 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 390235014889 ATP binding site [chemical binding]; other site 390235014890 Mg2+ binding site [ion binding]; other site 390235014891 G-X-G motif; other site 390235014892 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 390235014893 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 390235014894 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 390235014895 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 390235014896 putative metal binding site [ion binding]; other site 390235014897 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 390235014898 HSP70 interaction site [polypeptide binding]; other site 390235014899 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 390235014900 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 390235014901 Substrate binding site; other site 390235014902 metal-binding site 390235014903 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 390235014904 Phosphotransferase enzyme family; Region: APH; pfam01636 390235014905 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 390235014906 OstA-like protein; Region: OstA; cl00844 390235014907 Organic solvent tolerance protein; Region: OstA_C; pfam04453 390235014908 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 390235014909 SurA N-terminal domain; Region: SurA_N; pfam09312 390235014910 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 390235014911 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 390235014912 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 390235014913 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 390235014914 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 390235014915 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 390235014916 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 390235014917 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 390235014918 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 390235014919 active site 390235014920 metal binding site [ion binding]; metal-binding site 390235014921 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 390235014922 active site residue [active] 390235014923 PrkA family serine protein kinase; Provisional; Region: PRK15455 390235014924 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 390235014925 hypothetical protein; Provisional; Region: PRK05325 390235014926 SpoVR family protein; Provisional; Region: PRK11767 390235014927 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 390235014928 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 390235014929 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 390235014930 active site 390235014931 NTP binding site [chemical binding]; other site 390235014932 metal binding triad [ion binding]; metal-binding site 390235014933 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 390235014934 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 390235014935 catalytic center binding site [active] 390235014936 ATP binding site [chemical binding]; other site 390235014937 Dihydroneopterin aldolase; Region: FolB; smart00905 390235014938 active site 390235014939 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 390235014940 UGMP family protein; Validated; Region: PRK09604 390235014941 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 390235014942 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 390235014943 DNA primase, catalytic core; Region: dnaG; TIGR01391 390235014944 CHC2 zinc finger; Region: zf-CHC2; pfam01807 390235014945 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 390235014946 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 390235014947 active site 390235014948 metal binding site [ion binding]; metal-binding site 390235014949 interdomain interaction site; other site 390235014950 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 390235014951 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 390235014952 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 390235014953 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 390235014954 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 390235014955 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 390235014956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235014957 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 390235014958 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 390235014959 DNA binding residues [nucleotide binding] 390235014960 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235014961 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 390235014962 substrate binding pocket [chemical binding]; other site 390235014963 membrane-bound complex binding site; other site 390235014964 hinge residues; other site 390235014965 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 390235014966 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 390235014967 putative active site [active] 390235014968 heme pocket [chemical binding]; other site 390235014969 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 390235014970 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 390235014971 putative active site [active] 390235014972 heme pocket [chemical binding]; other site 390235014973 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 390235014974 putative active site [active] 390235014975 heme pocket [chemical binding]; other site 390235014976 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 390235014977 putative active site [active] 390235014978 heme pocket [chemical binding]; other site 390235014979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235014980 metal binding site [ion binding]; metal-binding site 390235014981 active site 390235014982 I-site; other site 390235014983 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 390235014984 Fic family protein [Function unknown]; Region: COG3177 390235014985 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 390235014986 Fic/DOC family; Region: Fic; pfam02661 390235014987 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 390235014988 trimer interface [polypeptide binding]; other site 390235014989 active site 390235014990 substrate binding site [chemical binding]; other site 390235014991 CoA binding site [chemical binding]; other site 390235014992 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 390235014993 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 390235014994 AsnC family; Region: AsnC_trans_reg; pfam01037 390235014995 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 390235014996 Predicted amidohydrolase [General function prediction only]; Region: COG0388 390235014997 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 390235014998 putative active site [active] 390235014999 catalytic triad [active] 390235015000 putative dimer interface [polypeptide binding]; other site 390235015001 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 390235015002 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 390235015003 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235015004 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235015005 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 390235015006 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 390235015007 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 390235015008 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 390235015009 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 390235015010 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 390235015011 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 390235015012 FeS/SAM binding site; other site 390235015013 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 390235015014 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 390235015015 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 390235015016 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 390235015017 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 390235015018 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 390235015019 inhibitor-cofactor binding pocket; inhibition site 390235015020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235015022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235015023 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 390235015024 dimerization interface [polypeptide binding]; other site 390235015025 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 390235015026 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 390235015027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235015028 active site 390235015029 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235015030 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015031 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015032 metal binding site [ion binding]; metal-binding site 390235015033 active site 390235015034 I-site; other site 390235015035 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 390235015036 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 390235015037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235015038 active site 390235015039 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 390235015040 AAA domain; Region: AAA_26; pfam13500 390235015041 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 390235015042 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 390235015043 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 390235015044 S-adenosylmethionine binding site [chemical binding]; other site 390235015045 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 390235015046 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 390235015047 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 390235015048 substrate-cofactor binding pocket; other site 390235015049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015050 catalytic residue [active] 390235015051 biotin synthase; Provisional; Region: PRK15108 390235015052 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 390235015053 FeS/SAM binding site; other site 390235015054 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 390235015055 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 390235015056 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 390235015057 active site 390235015058 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 390235015059 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 390235015060 TOBE domain; Region: TOBE; cl01440 390235015061 TOBE domain; Region: TOBE; cl01440 390235015062 serine/threonine protein kinase; Provisional; Region: PRK11768 390235015063 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 390235015064 Predicted permeases [General function prediction only]; Region: RarD; COG2962 390235015065 EamA-like transporter family; Region: EamA; pfam00892 390235015066 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 390235015067 ACT domain; Region: ACT_6; pfam13740 390235015068 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 390235015069 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 390235015070 active site 390235015071 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 390235015072 active site 390235015073 phosphorylation site [posttranslational modification] 390235015074 intermolecular recognition site; other site 390235015075 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 390235015076 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 390235015077 ligand binding site [chemical binding]; other site 390235015078 flexible hinge region; other site 390235015079 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 390235015080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 390235015081 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 390235015082 metal binding triad; other site 390235015083 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 390235015084 active site 390235015085 catalytic site [active] 390235015086 substrate binding site [chemical binding]; other site 390235015087 RNA polymerase sigma factor; Reviewed; Region: PRK12523 390235015088 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 390235015089 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 390235015090 DNA binding residues [nucleotide binding] 390235015091 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 390235015092 FecR protein; Region: FecR; pfam04773 390235015093 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 390235015094 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 390235015095 N-terminal plug; other site 390235015096 ligand-binding site [chemical binding]; other site 390235015097 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 390235015098 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 390235015099 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 390235015100 active site 390235015101 ATP binding site [chemical binding]; other site 390235015102 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 390235015103 active site 390235015104 substrate binding site [chemical binding]; other site 390235015105 ATP binding site [chemical binding]; other site 390235015106 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 390235015107 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 390235015108 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 390235015109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 390235015110 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 390235015111 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 390235015112 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 390235015113 putative active site [active] 390235015114 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 390235015115 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 390235015116 putative active site [active] 390235015117 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 390235015118 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 390235015119 metal binding triad; other site 390235015120 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 390235015121 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 390235015122 metal binding triad; other site 390235015123 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 390235015124 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 390235015125 dimer interface [polypeptide binding]; other site 390235015126 TPP-binding site [chemical binding]; other site 390235015127 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 390235015128 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 390235015129 E3 interaction surface; other site 390235015130 lipoyl attachment site [posttranslational modification]; other site 390235015131 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 390235015132 E3 interaction surface; other site 390235015133 lipoyl attachment site [posttranslational modification]; other site 390235015134 e3 binding domain; Region: E3_binding; pfam02817 390235015135 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 390235015136 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 390235015137 GAF domain; Region: GAF; pfam01590 390235015138 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 390235015139 PAS domain; Region: PAS_9; pfam13426 390235015140 putative active site [active] 390235015141 heme pocket [chemical binding]; other site 390235015142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015144 metal binding site [ion binding]; metal-binding site 390235015145 active site 390235015146 I-site; other site 390235015147 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 390235015148 methionine sulfoxide reductase A; Provisional; Region: PRK00058 390235015149 putative glutathione S-transferase; Provisional; Region: PRK10357 390235015150 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 390235015151 putative C-terminal domain interface [polypeptide binding]; other site 390235015152 putative GSH binding site (G-site) [chemical binding]; other site 390235015153 putative dimer interface [polypeptide binding]; other site 390235015154 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 390235015155 dimer interface [polypeptide binding]; other site 390235015156 N-terminal domain interface [polypeptide binding]; other site 390235015157 putative substrate binding pocket (H-site) [chemical binding]; other site 390235015158 inner membrane protein; Provisional; Region: PRK11715 390235015159 sensory histidine kinase CreC; Provisional; Region: PRK11100 390235015160 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 390235015161 dimer interface [polypeptide binding]; other site 390235015162 phosphorylation site [posttranslational modification] 390235015163 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 390235015164 ATP binding site [chemical binding]; other site 390235015165 G-X-G motif; other site 390235015166 DNA-binding response regulator CreB; Provisional; Region: PRK11083 390235015167 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 390235015168 active site 390235015169 phosphorylation site [posttranslational modification] 390235015170 intermolecular recognition site; other site 390235015171 dimerization interface [polypeptide binding]; other site 390235015172 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 390235015173 DNA binding site [nucleotide binding] 390235015174 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 390235015175 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 390235015176 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 390235015177 putative acyl-acceptor binding pocket; other site 390235015178 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 390235015179 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235015180 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235015181 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235015182 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 390235015183 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 390235015184 NAD binding site [chemical binding]; other site 390235015185 catalytic Zn binding site [ion binding]; other site 390235015186 structural Zn binding site [ion binding]; other site 390235015187 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 390235015188 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 390235015189 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 390235015190 putative active site [active] 390235015191 putative substrate binding site [chemical binding]; other site 390235015192 putative cosubstrate binding site; other site 390235015193 catalytic site [active] 390235015194 sarcosine oxidase, gamma subunit family, heterotetrameric form; Region: soxG; TIGR01375 390235015195 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 390235015196 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 390235015197 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 390235015198 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 390235015199 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 390235015200 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 390235015201 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 390235015202 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 390235015203 dimer interface [polypeptide binding]; other site 390235015204 active site 390235015205 glycine-pyridoxal phosphate binding site [chemical binding]; other site 390235015206 folate binding site [chemical binding]; other site 390235015207 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 390235015208 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 390235015209 tetramer interface [polypeptide binding]; other site 390235015210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015211 catalytic residue [active] 390235015212 Cache domain; Region: Cache_1; pfam02743 390235015213 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 390235015214 dimerization interface [polypeptide binding]; other site 390235015215 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235015216 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235015217 dimer interface [polypeptide binding]; other site 390235015218 putative CheW interface [polypeptide binding]; other site 390235015219 Cell division protein ZapA; Region: ZapA; pfam05164 390235015220 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 390235015221 HAMP domain; Region: HAMP; pfam00672 390235015222 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 390235015223 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 390235015224 dimer interface [polypeptide binding]; other site 390235015225 putative CheW interface [polypeptide binding]; other site 390235015226 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 390235015227 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_1; cd06215 390235015228 FAD binding pocket [chemical binding]; other site 390235015229 FAD binding motif [chemical binding]; other site 390235015230 phosphate binding motif [ion binding]; other site 390235015231 beta-alpha-beta structure motif; other site 390235015232 NAD binding pocket [chemical binding]; other site 390235015233 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 390235015234 catalytic loop [active] 390235015235 iron binding site [ion binding]; other site 390235015236 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 390235015237 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 390235015238 [2Fe-2S] cluster binding site [ion binding]; other site 390235015239 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 390235015240 putative alpha subunit interface [polypeptide binding]; other site 390235015241 putative active site [active] 390235015242 putative substrate binding site [chemical binding]; other site 390235015243 Fe binding site [ion binding]; other site 390235015244 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 390235015245 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 390235015246 Ligand Binding Site [chemical binding]; other site 390235015247 Electron transfer flavoprotein domain; Region: ETF; pfam01012 390235015248 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 390235015249 Ligand Binding Site [chemical binding]; other site 390235015250 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 390235015251 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 390235015252 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 390235015253 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 390235015254 Cysteine-rich domain; Region: CCG; pfam02754 390235015255 Cysteine-rich domain; Region: CCG; pfam02754 390235015256 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 390235015257 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 390235015258 putative active site [active] 390235015259 putative FMN binding site [chemical binding]; other site 390235015260 putative substrate binding site [chemical binding]; other site 390235015261 putative catalytic residue [active] 390235015262 V4R domain; Region: V4R; cl15268 390235015263 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 390235015264 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 390235015265 active site 390235015266 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 390235015267 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235015268 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235015269 conserved cys residue [active] 390235015270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235015271 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 390235015272 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 390235015273 Uncharacterized conserved protein [Function unknown]; Region: COG3246 390235015274 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 390235015275 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 390235015276 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 390235015277 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 390235015278 active site 390235015279 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 390235015280 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 390235015281 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 390235015282 conserved cys residue [active] 390235015283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 390235015284 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 390235015285 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 390235015286 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 390235015287 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 390235015288 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 390235015289 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 390235015290 dimer interface [polypeptide binding]; other site 390235015291 conserved gate region; other site 390235015292 putative PBP binding loops; other site 390235015293 ABC-ATPase subunit interface; other site 390235015294 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 390235015295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235015296 Walker A/P-loop; other site 390235015297 ATP binding site [chemical binding]; other site 390235015298 Q-loop/lid; other site 390235015299 ABC transporter signature motif; other site 390235015300 Walker B; other site 390235015301 D-loop; other site 390235015302 H-loop/switch region; other site 390235015303 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 390235015304 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 390235015305 substrate binding site [chemical binding]; other site 390235015306 glutamase interaction surface [polypeptide binding]; other site 390235015307 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 390235015308 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 390235015309 catalytic residues [active] 390235015310 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 390235015311 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 390235015312 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 390235015313 putative active site [active] 390235015314 oxyanion strand; other site 390235015315 catalytic triad [active] 390235015316 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 390235015317 putative active site pocket [active] 390235015318 4-fold oligomerization interface [polypeptide binding]; other site 390235015319 metal binding residues [ion binding]; metal-binding site 390235015320 3-fold/trimer interface [polypeptide binding]; other site 390235015321 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 390235015322 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 390235015323 AsmA family; Region: AsmA; pfam05170 390235015324 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 390235015325 adenine DNA glycosylase; Provisional; Region: PRK10880 390235015326 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 390235015327 minor groove reading motif; other site 390235015328 helix-hairpin-helix signature motif; other site 390235015329 substrate binding pocket [chemical binding]; other site 390235015330 active site 390235015331 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 390235015332 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 390235015333 DNA binding and oxoG recognition site [nucleotide binding] 390235015334 oxidative damage protection protein; Provisional; Region: PRK05408 390235015335 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 390235015336 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 390235015337 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 390235015338 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235015339 Walker A/P-loop; other site 390235015340 ATP binding site [chemical binding]; other site 390235015341 Q-loop/lid; other site 390235015342 ABC transporter signature motif; other site 390235015343 Walker B; other site 390235015344 D-loop; other site 390235015345 H-loop/switch region; other site 390235015346 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235015347 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 390235015348 substrate binding pocket [chemical binding]; other site 390235015349 membrane-bound complex binding site; other site 390235015350 hinge residues; other site 390235015351 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235015352 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 390235015353 dimer interface [polypeptide binding]; other site 390235015354 conserved gate region; other site 390235015355 putative PBP binding loops; other site 390235015356 ABC-ATPase subunit interface; other site 390235015357 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 390235015358 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 390235015359 dimer interface [polypeptide binding]; other site 390235015360 conserved gate region; other site 390235015361 putative PBP binding loops; other site 390235015362 ABC-ATPase subunit interface; other site 390235015363 Methyltransferase domain; Region: Methyltransf_32; pfam13679 390235015364 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235015365 integrase; Provisional; Region: PRK09692 390235015366 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 390235015367 active site 390235015368 Int/Topo IB signature motif; other site 390235015369 AAA ATPase domain; Region: AAA_16; pfam13191 390235015370 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 390235015371 binding surface 390235015372 TPR motif; other site 390235015373 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 390235015374 non-specific DNA binding site [nucleotide binding]; other site 390235015375 salt bridge; other site 390235015376 sequence-specific DNA binding site [nucleotide binding]; other site 390235015377 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 390235015378 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 390235015379 active site 390235015380 FMN binding site [chemical binding]; other site 390235015381 substrate binding site [chemical binding]; other site 390235015382 3Fe-4S cluster binding site [ion binding]; other site 390235015383 outer membrane porin, OprD family; Region: OprD; pfam03573 390235015384 agmatine deiminase; Provisional; Region: PRK13551 390235015385 agmatine deiminase; Region: agmatine_aguA; TIGR03380 390235015386 hypothetical protein; Provisional; Region: PRK06149 390235015387 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 390235015388 active site 390235015389 ATP binding site [chemical binding]; other site 390235015390 substrate binding site [chemical binding]; other site 390235015391 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 390235015392 inhibitor-cofactor binding pocket; inhibition site 390235015393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015394 catalytic residue [active] 390235015395 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 390235015396 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 390235015397 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 390235015398 NADP binding site [chemical binding]; other site 390235015399 active site 390235015400 putative substrate binding site [chemical binding]; other site 390235015401 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 390235015402 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 390235015403 dimer interface [polypeptide binding]; other site 390235015404 phosphorylation site [posttranslational modification] 390235015405 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 390235015406 ATP binding site [chemical binding]; other site 390235015407 G-X-G motif; other site 390235015408 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235015409 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 390235015410 active site 390235015411 phosphorylation site [posttranslational modification] 390235015412 intermolecular recognition site; other site 390235015413 dimerization interface [polypeptide binding]; other site 390235015414 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 390235015415 Walker A motif; other site 390235015416 ATP binding site [chemical binding]; other site 390235015417 Walker B motif; other site 390235015418 arginine finger; other site 390235015419 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 390235015420 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 390235015421 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 390235015422 active site 390235015423 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 390235015424 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 390235015425 dimer interface [polypeptide binding]; other site 390235015426 ADP-ribose binding site [chemical binding]; other site 390235015427 active site 390235015428 nudix motif; other site 390235015429 metal binding site [ion binding]; metal-binding site 390235015430 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 390235015431 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 390235015432 motif II; other site 390235015433 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 390235015434 BON domain; Region: BON; pfam04972 390235015435 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 390235015436 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 390235015437 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 390235015438 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 390235015439 putative molybdopterin cofactor binding site [chemical binding]; other site 390235015440 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 390235015441 putative molybdopterin cofactor binding site; other site 390235015442 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 390235015443 active site 390235015444 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 390235015445 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 390235015446 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 390235015447 active site 390235015448 substrate-binding site [chemical binding]; other site 390235015449 metal-binding site [ion binding] 390235015450 ATP binding site [chemical binding]; other site 390235015451 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 390235015452 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 390235015453 dimerization interface [polypeptide binding]; other site 390235015454 domain crossover interface; other site 390235015455 redox-dependent activation switch; other site 390235015456 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 390235015457 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 390235015458 active site 390235015459 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 390235015460 RNA binding surface [nucleotide binding]; other site 390235015461 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 390235015462 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 390235015463 RimK-like ATP-grasp domain; Region: RimK; pfam08443 390235015464 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 390235015465 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 390235015466 dimerization interface [polypeptide binding]; other site 390235015467 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 390235015468 ATP binding site [chemical binding]; other site 390235015469 Mg2+ binding site [ion binding]; other site 390235015470 G-X-G motif; other site 390235015471 osmolarity response regulator; Provisional; Region: ompR; PRK09468 390235015472 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 390235015473 active site 390235015474 phosphorylation site [posttranslational modification] 390235015475 intermolecular recognition site; other site 390235015476 dimerization interface [polypeptide binding]; other site 390235015477 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 390235015478 DNA binding site [nucleotide binding] 390235015479 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 390235015480 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 390235015481 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 390235015482 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 390235015483 RNA binding site [nucleotide binding]; other site 390235015484 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 390235015485 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 390235015486 CoenzymeA binding site [chemical binding]; other site 390235015487 subunit interaction site [polypeptide binding]; other site 390235015488 PHB binding site; other site 390235015489 glutamate--cysteine ligase; Provisional; Region: PRK02107 390235015490 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 390235015491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 390235015492 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 390235015493 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 390235015494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235015495 Walker A/P-loop; other site 390235015496 ATP binding site [chemical binding]; other site 390235015497 Q-loop/lid; other site 390235015498 ABC transporter signature motif; other site 390235015499 Walker B; other site 390235015500 D-loop; other site 390235015501 H-loop/switch region; other site 390235015502 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015503 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 390235015504 dimer interface [polypeptide binding]; other site 390235015505 conserved gate region; other site 390235015506 putative PBP binding loops; other site 390235015507 ABC-ATPase subunit interface; other site 390235015508 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 390235015509 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 390235015510 active site 390235015511 dimer interface [polypeptide binding]; other site 390235015512 non-prolyl cis peptide bond; other site 390235015513 insertion regions; other site 390235015514 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 390235015515 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 390235015516 substrate binding pocket [chemical binding]; other site 390235015517 membrane-bound complex binding site; other site 390235015518 hinge residues; other site 390235015519 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 390235015520 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235015521 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 390235015522 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 390235015523 dimer interface [polypeptide binding]; other site 390235015524 decamer (pentamer of dimers) interface [polypeptide binding]; other site 390235015525 catalytic triad [active] 390235015526 outer membrane porin, OprD family; Region: OprD; pfam03573 390235015527 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 390235015528 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 390235015529 substrate binding pocket [chemical binding]; other site 390235015530 membrane-bound complex binding site; other site 390235015531 hinge residues; other site 390235015532 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 390235015533 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 390235015534 Walker A/P-loop; other site 390235015535 ATP binding site [chemical binding]; other site 390235015536 Q-loop/lid; other site 390235015537 ABC transporter signature motif; other site 390235015538 Walker B; other site 390235015539 D-loop; other site 390235015540 H-loop/switch region; other site 390235015541 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015542 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 390235015543 dimer interface [polypeptide binding]; other site 390235015544 conserved gate region; other site 390235015545 putative PBP binding loops; other site 390235015546 ABC-ATPase subunit interface; other site 390235015547 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 390235015548 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 390235015549 BCCT family transporter; Region: BCCT; cl00569 390235015550 serine O-acetyltransferase; Region: cysE; TIGR01172 390235015551 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 390235015552 trimer interface [polypeptide binding]; other site 390235015553 active site 390235015554 substrate binding site [chemical binding]; other site 390235015555 CoA binding site [chemical binding]; other site 390235015556 cystine transporter subunit; Provisional; Region: PRK11260 390235015557 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 390235015558 substrate binding pocket [chemical binding]; other site 390235015559 membrane-bound complex binding site; other site 390235015560 hinge residues; other site 390235015561 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 390235015562 dimer interface [polypeptide binding]; other site 390235015563 conserved gate region; other site 390235015564 putative PBP binding loops; other site 390235015565 ABC-ATPase subunit interface; other site 390235015566 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 390235015567 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 390235015568 Walker A/P-loop; other site 390235015569 ATP binding site [chemical binding]; other site 390235015570 Q-loop/lid; other site 390235015571 ABC transporter signature motif; other site 390235015572 Walker B; other site 390235015573 D-loop; other site 390235015574 H-loop/switch region; other site 390235015575 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 390235015576 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 390235015577 active site 390235015578 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 390235015579 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 390235015580 Flavin binding site [chemical binding]; other site 390235015581 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 390235015582 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 390235015583 active site 390235015584 non-prolyl cis peptide bond; other site 390235015585 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 390235015586 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 390235015587 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 390235015588 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 390235015589 Walker A/P-loop; other site 390235015590 ATP binding site [chemical binding]; other site 390235015591 Q-loop/lid; other site 390235015592 ABC transporter signature motif; other site 390235015593 Walker B; other site 390235015594 D-loop; other site 390235015595 H-loop/switch region; other site 390235015596 NIL domain; Region: NIL; pfam09383 390235015597 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 390235015598 dimer interface [polypeptide binding]; other site 390235015599 conserved gate region; other site 390235015600 ABC-ATPase subunit interface; other site 390235015601 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 390235015602 PAS domain; Region: PAS_9; pfam13426 390235015603 putative active site [active] 390235015604 heme pocket [chemical binding]; other site 390235015605 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015607 metal binding site [ion binding]; metal-binding site 390235015608 active site 390235015609 I-site; other site 390235015610 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 390235015611 Fatty acid desaturase; Region: FA_desaturase; pfam00487 390235015612 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 390235015613 Di-iron ligands [ion binding]; other site 390235015614 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 390235015615 Transposase; Region: DDE_Tnp_ISL3; pfam01610 390235015616 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 390235015617 PAS fold; Region: PAS_3; pfam08447 390235015618 putative active site [active] 390235015619 heme pocket [chemical binding]; other site 390235015620 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015621 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015622 metal binding site [ion binding]; metal-binding site 390235015623 active site 390235015624 I-site; other site 390235015625 Response regulator receiver domain; Region: Response_reg; pfam00072 390235015626 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 390235015627 active site 390235015628 phosphorylation site [posttranslational modification] 390235015629 intermolecular recognition site; other site 390235015630 dimerization interface [polypeptide binding]; other site 390235015631 HDOD domain; Region: HDOD; pfam08668 390235015632 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 390235015633 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 390235015634 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 390235015635 inhibitor-cofactor binding pocket; inhibition site 390235015636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015637 catalytic residue [active] 390235015638 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 390235015639 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 390235015640 tetramerization interface [polypeptide binding]; other site 390235015641 NAD(P) binding site [chemical binding]; other site 390235015642 catalytic residues [active] 390235015643 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 390235015644 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 390235015645 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 390235015646 N-terminal plug; other site 390235015647 ligand-binding site [chemical binding]; other site 390235015648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235015649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235015650 LysR substrate binding domain; Region: LysR_substrate; pfam03466 390235015651 dimerization interface [polypeptide binding]; other site 390235015652 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 390235015653 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 390235015654 active site 390235015655 iron coordination sites [ion binding]; other site 390235015656 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 390235015657 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 390235015658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 390235015659 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015660 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 390235015661 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015662 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 390235015663 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 390235015664 Walker A/P-loop; other site 390235015665 ATP binding site [chemical binding]; other site 390235015666 Q-loop/lid; other site 390235015667 ABC transporter signature motif; other site 390235015668 Walker B; other site 390235015669 D-loop; other site 390235015670 H-loop/switch region; other site 390235015671 Protein of unknown function (DUF971); Region: DUF971; pfam06155 390235015672 HEAT repeats; Region: HEAT_2; pfam13646 390235015673 HEAT repeats; Region: HEAT_2; pfam13646 390235015674 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 390235015675 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 390235015676 Walker A/P-loop; other site 390235015677 ATP binding site [chemical binding]; other site 390235015678 Q-loop/lid; other site 390235015679 ABC transporter signature motif; other site 390235015680 Walker B; other site 390235015681 D-loop; other site 390235015682 H-loop/switch region; other site 390235015683 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015684 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 390235015685 dimer interface [polypeptide binding]; other site 390235015686 conserved gate region; other site 390235015687 putative PBP binding loops; other site 390235015688 ABC-ATPase subunit interface; other site 390235015689 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 390235015690 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 390235015691 substrate binding pocket [chemical binding]; other site 390235015692 membrane-bound complex binding site; other site 390235015693 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 390235015694 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 390235015695 putative oxidoreductase; Provisional; Region: PRK08275 390235015696 L-aspartate oxidase; Provisional; Region: PRK06175 390235015697 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 390235015698 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 390235015699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235015700 DNA-binding site [nucleotide binding]; DNA binding site 390235015701 UTRA domain; Region: UTRA; pfam07702 390235015702 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 390235015703 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 390235015704 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 390235015705 Walker A motif; other site 390235015706 ATP binding site [chemical binding]; other site 390235015707 Walker B motif; other site 390235015708 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 390235015709 glycine dehydrogenase; Provisional; Region: PRK12566 390235015710 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 390235015711 tetramer interface [polypeptide binding]; other site 390235015712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015713 catalytic residue [active] 390235015714 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 390235015715 tetramer interface [polypeptide binding]; other site 390235015716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235015717 catalytic residue [active] 390235015718 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 390235015719 lipoyl attachment site [posttranslational modification]; other site 390235015720 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 390235015721 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 390235015722 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 390235015723 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 390235015724 dimer interface [polypeptide binding]; other site 390235015725 conserved gate region; other site 390235015726 putative PBP binding loops; other site 390235015727 ABC-ATPase subunit interface; other site 390235015728 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 390235015729 dimer interface [polypeptide binding]; other site 390235015730 conserved gate region; other site 390235015731 putative PBP binding loops; other site 390235015732 ABC-ATPase subunit interface; other site 390235015733 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 390235015734 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 390235015735 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 390235015736 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 390235015737 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 390235015738 active site 2 [active] 390235015739 active site 1 [active] 390235015740 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 390235015741 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 390235015742 proline aminopeptidase P II; Provisional; Region: PRK10879 390235015743 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 390235015744 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 390235015745 active site 390235015746 hypothetical protein; Reviewed; Region: PRK02166 390235015747 TIGR02449 family protein; Region: TIGR02449 390235015748 Cell division protein ZapA; Region: ZapA; pfam05164 390235015749 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 390235015750 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 390235015751 EVE domain; Region: EVE; cl00728 390235015752 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 390235015753 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 390235015754 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 390235015755 NAD(P) binding site [chemical binding]; other site 390235015756 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 390235015757 putative active site pocket [active] 390235015758 dimerization interface [polypeptide binding]; other site 390235015759 putative catalytic residue [active] 390235015760 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 390235015761 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 390235015762 catalytic loop [active] 390235015763 iron binding site [ion binding]; other site 390235015764 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 390235015765 FAD binding pocket [chemical binding]; other site 390235015766 FAD binding motif [chemical binding]; other site 390235015767 phosphate binding motif [ion binding]; other site 390235015768 beta-alpha-beta structure motif; other site 390235015769 NAD binding pocket [chemical binding]; other site 390235015770 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 390235015771 transcription termination factor Rho; Provisional; Region: rho; PRK09376 390235015772 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 390235015773 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 390235015774 RNA binding site [nucleotide binding]; other site 390235015775 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 390235015776 multimer interface [polypeptide binding]; other site 390235015777 Walker A motif; other site 390235015778 ATP binding site [chemical binding]; other site 390235015779 Walker B motif; other site 390235015780 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 390235015781 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 390235015782 catalytic residues [active] 390235015783 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 390235015784 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 390235015785 polyphosphate kinase; Provisional; Region: PRK05443 390235015786 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 390235015787 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 390235015788 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 390235015789 putative active site [active] 390235015790 catalytic site [active] 390235015791 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 390235015792 putative domain interface [polypeptide binding]; other site 390235015793 putative active site [active] 390235015794 catalytic site [active] 390235015795 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 390235015796 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 390235015797 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 390235015798 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 390235015799 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 390235015800 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 390235015801 conserved cys residue [active] 390235015802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 390235015803 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 390235015804 Transposase IS200 like; Region: Y1_Tnp; pfam01797 390235015805 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 390235015806 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 390235015807 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235015808 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235015809 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 390235015810 Fusaric acid resistance protein family; Region: FUSC; pfam04632 390235015811 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 390235015812 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 390235015813 MarR family; Region: MarR_2; cl17246 390235015814 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 390235015815 Sel1 repeat; Region: Sel1; cl02723 390235015816 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 390235015817 WYL domain; Region: WYL; pfam13280 390235015818 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 390235015819 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 390235015820 putative PBP binding loops; other site 390235015821 ABC-ATPase subunit interface; other site 390235015822 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 390235015823 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 390235015824 Walker A/P-loop; other site 390235015825 ATP binding site [chemical binding]; other site 390235015826 Q-loop/lid; other site 390235015827 ABC transporter signature motif; other site 390235015828 Walker B; other site 390235015829 D-loop; other site 390235015830 H-loop/switch region; other site 390235015831 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 390235015832 NMT1-like family; Region: NMT1_2; pfam13379 390235015833 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 390235015834 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 390235015835 Calx-beta domain; Region: Calx-beta; cl02522 390235015836 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 390235015837 metal ion-dependent adhesion site (MIDAS); other site 390235015838 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 390235015839 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39_likeD; cd02421 390235015840 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 390235015841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 390235015842 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 390235015843 Walker A/P-loop; other site 390235015844 ATP binding site [chemical binding]; other site 390235015845 Q-loop/lid; other site 390235015846 ABC transporter signature motif; other site 390235015847 Walker B; other site 390235015848 D-loop; other site 390235015849 H-loop/switch region; other site 390235015850 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 390235015851 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 390235015852 HlyD family secretion protein; Region: HlyD_3; pfam13437 390235015853 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 390235015854 dimerization interface [polypeptide binding]; other site 390235015855 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015857 metal binding site [ion binding]; metal-binding site 390235015858 active site 390235015859 I-site; other site 390235015860 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 390235015861 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 390235015862 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 390235015863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235015864 DNA-binding site [nucleotide binding]; DNA binding site 390235015865 FCD domain; Region: FCD; pfam07729 390235015866 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 390235015867 CoA-transferase family III; Region: CoA_transf_3; pfam02515 390235015868 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 390235015869 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 390235015870 FAD binding site [chemical binding]; other site 390235015871 substrate binding pocket [chemical binding]; other site 390235015872 catalytic base [active] 390235015873 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 390235015874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235015875 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 390235015876 dimerization interface [polypeptide binding]; other site 390235015877 substrate binding pocket [chemical binding]; other site 390235015878 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 390235015879 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 390235015880 ligand binding site [chemical binding]; other site 390235015881 homodimer interface [polypeptide binding]; other site 390235015882 NAD(P) binding site [chemical binding]; other site 390235015883 trimer interface B [polypeptide binding]; other site 390235015884 trimer interface A [polypeptide binding]; other site 390235015885 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 390235015886 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 390235015887 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 390235015888 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 390235015889 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 390235015890 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 390235015891 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 390235015892 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 390235015893 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 390235015894 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 390235015895 Uncharacterized conserved protein [Function unknown]; Region: COG3791 390235015896 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 390235015897 Citrate transporter; Region: CitMHS; pfam03600 390235015898 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 390235015899 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 390235015900 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 390235015901 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 390235015902 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 390235015903 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 390235015904 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 390235015905 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 390235015906 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 390235015907 Permease; Region: Permease; pfam02405 390235015908 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 390235015909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 390235015910 Walker A/P-loop; other site 390235015911 ATP binding site [chemical binding]; other site 390235015912 Q-loop/lid; other site 390235015913 ABC transporter signature motif; other site 390235015914 Walker B; other site 390235015915 D-loop; other site 390235015916 H-loop/switch region; other site 390235015917 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 390235015918 mce related protein; Region: MCE; pfam02470 390235015919 Protein of unknown function (DUF330); Region: DUF330; cl01135 390235015920 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 390235015921 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 390235015922 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 390235015923 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235015924 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 390235015925 BON domain; Region: BON; pfam04972 390235015926 BON domain; Region: BON; pfam04972 390235015927 BON domain; Region: BON; pfam04972 390235015928 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 390235015929 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 390235015930 active site 390235015931 phosphorylation site [posttranslational modification] 390235015932 intermolecular recognition site; other site 390235015933 dimerization interface [polypeptide binding]; other site 390235015934 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 390235015935 Walker A motif; other site 390235015936 ATP binding site [chemical binding]; other site 390235015937 Walker B motif; other site 390235015938 arginine finger; other site 390235015939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 390235015940 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 390235015941 dimerization interface [polypeptide binding]; other site 390235015942 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 390235015943 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 390235015944 dimer interface [polypeptide binding]; other site 390235015945 phosphorylation site [posttranslational modification] 390235015946 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 390235015947 ATP binding site [chemical binding]; other site 390235015948 Mg2+ binding site [ion binding]; other site 390235015949 G-X-G motif; other site 390235015950 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 390235015951 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 390235015952 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 390235015953 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 390235015954 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 390235015955 amidase catalytic site [active] 390235015956 Zn binding residues [ion binding]; other site 390235015957 substrate binding site [chemical binding]; other site 390235015958 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 390235015959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 390235015960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 390235015961 metal binding site [ion binding]; metal-binding site 390235015962 active site 390235015963 I-site; other site 390235015964 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 390235015965 putative catalytic site [active] 390235015966 putative metal binding site [ion binding]; other site 390235015967 putative phosphate binding site [ion binding]; other site 390235015968 putative catalytic site [active] 390235015969 putative phosphate binding site [ion binding]; other site 390235015970 putative metal binding site [ion binding]; other site 390235015971 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 390235015972 catalytic residues [active] 390235015973 hinge region; other site 390235015974 alpha helical domain; other site 390235015975 Cytochrome c553 [Energy production and conversion]; Region: COG2863 390235015976 Cytochrome c; Region: Cytochrom_C; cl11414 390235015977 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 390235015978 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 390235015979 G1 box; other site 390235015980 GTP/Mg2+ binding site [chemical binding]; other site 390235015981 Switch I region; other site 390235015982 G2 box; other site 390235015983 G3 box; other site 390235015984 Switch II region; other site 390235015985 G4 box; other site 390235015986 G5 box; other site 390235015987 DNA polymerase I; Provisional; Region: PRK05755 390235015988 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 390235015989 active site 390235015990 metal binding site 1 [ion binding]; metal-binding site 390235015991 putative 5' ssDNA interaction site; other site 390235015992 metal binding site 3; metal-binding site 390235015993 metal binding site 2 [ion binding]; metal-binding site 390235015994 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 390235015995 putative DNA binding site [nucleotide binding]; other site 390235015996 putative metal binding site [ion binding]; other site 390235015997 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 390235015998 active site 390235015999 catalytic site [active] 390235016000 substrate binding site [chemical binding]; other site 390235016001 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 390235016002 active site 390235016003 DNA binding site [nucleotide binding] 390235016004 catalytic site [active] 390235016005 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 390235016006 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 390235016007 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 390235016008 putative active site [active] 390235016009 putative substrate binding site [chemical binding]; other site 390235016010 ATP binding site [chemical binding]; other site 390235016011 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 390235016012 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 390235016013 metal binding site [ion binding]; metal-binding site 390235016014 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 390235016015 metal binding site 2 [ion binding]; metal-binding site 390235016016 putative DNA binding helix; other site 390235016017 metal binding site 1 [ion binding]; metal-binding site 390235016018 dimer interface [polypeptide binding]; other site 390235016019 structural Zn2+ binding site [ion binding]; other site 390235016020 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 390235016021 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 390235016022 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 390235016023 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 390235016024 ABC-ATPase subunit interface; other site 390235016025 dimer interface [polypeptide binding]; other site 390235016026 putative PBP binding regions; other site 390235016027 hydroperoxidase II; Provisional; Region: katE; PRK11249 390235016028 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 390235016029 tetramer interface [polypeptide binding]; other site 390235016030 heme binding pocket [chemical binding]; other site 390235016031 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 390235016032 domain interactions; other site 390235016033 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 390235016034 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 390235016035 Walker A/P-loop; other site 390235016036 ATP binding site [chemical binding]; other site 390235016037 Q-loop/lid; other site 390235016038 ABC transporter signature motif; other site 390235016039 Walker B; other site 390235016040 D-loop; other site 390235016041 H-loop/switch region; other site 390235016042 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 390235016043 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 390235016044 dimer interface [polypeptide binding]; other site 390235016045 conserved gate region; other site 390235016046 ABC-ATPase subunit interface; other site 390235016047 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 390235016048 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 390235016049 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 390235016050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 390235016051 DNA-binding site [nucleotide binding]; DNA binding site 390235016052 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 390235016053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 390235016054 homodimer interface [polypeptide binding]; other site 390235016055 catalytic residue [active] 390235016056 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 390235016057 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 390235016058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 390235016059 Coenzyme A binding pocket [chemical binding]; other site 390235016060 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 390235016061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 390235016062 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 390235016063 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 390235016064 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 390235016065 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 390235016066 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 390235016067 substrate binding pocket [chemical binding]; other site 390235016068 membrane-bound complex binding site; other site 390235016069 hinge residues; other site 390235016070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 390235016071 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 390235016072 dimer interface [polypeptide binding]; other site 390235016073 ABC-ATPase subunit interface; other site 390235016074 putative PBP binding loops; other site 390235016075 pyruvate carboxylase subunit B; Validated; Region: PRK09282 390235016076 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 390235016077 active site 390235016078 catalytic residues [active] 390235016079 metal binding site [ion binding]; metal-binding site 390235016080 homodimer binding site [polypeptide binding]; other site 390235016081 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 390235016082 carboxyltransferase (CT) interaction site; other site 390235016083 biotinylation site [posttranslational modification]; other site 390235016084 pyruvate carboxylase subunit A; Validated; Region: PRK07178 390235016085 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 390235016086 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 390235016087 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 390235016088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 390235016089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235016090 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 390235016091 dimerization interface [polypeptide binding]; other site 390235016092 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 390235016093 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 390235016094 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 390235016095 putative active site [active] 390235016096 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 390235016097 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 390235016098 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 390235016099 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 390235016100 Part of AAA domain; Region: AAA_19; pfam13245 390235016101 Family description; Region: UvrD_C_2; pfam13538 390235016102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 390235016103 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 390235016104 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 390235016105 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 390235016106 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 390235016107 pyridoxamine kinase; Validated; Region: PRK05756 390235016108 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 390235016109 pyridoxal binding site [chemical binding]; other site 390235016110 dimer interface [polypeptide binding]; other site 390235016111 ATP binding site [chemical binding]; other site 390235016112 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 390235016113 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 390235016114 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 390235016115 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 390235016116 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 390235016117 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 390235016118 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 390235016119 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 390235016120 putative GTP cyclohydrolase; Provisional; Region: PRK13674 390235016121 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 390235016122 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 390235016123 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 390235016124 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 390235016125 putative active site [active] 390235016126 catalytic site [active] 390235016127 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 390235016128 putative active site [active] 390235016129 catalytic site [active] 390235016130 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 390235016131 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 390235016132 S-adenosylmethionine binding site [chemical binding]; other site 390235016133 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 390235016134 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 390235016135 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 390235016136 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 390235016137 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 390235016138 dimerization interface [polypeptide binding]; other site 390235016139 putative DNA binding site [nucleotide binding]; other site 390235016140 putative Zn2+ binding site [ion binding]; other site 390235016141 Low molecular weight phosphatase family; Region: LMWPc; cd00115 390235016142 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 390235016143 active site 390235016144 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 390235016145 arsenical-resistance protein; Region: acr3; TIGR00832 390235016146 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 390235016147 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 390235016148 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 390235016149 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 390235016150 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 390235016151 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 390235016152 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 390235016153 tetramer interface [polypeptide binding]; other site 390235016154 active site 390235016155 Mg2+/Mn2+ binding site [ion binding]; other site 390235016156 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 390235016157 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 390235016158 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 390235016159 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 390235016160 putative active site pocket [active] 390235016161 metal binding site [ion binding]; metal-binding site 390235016162 cell density-dependent motility repressor; Provisional; Region: PRK10082 390235016163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 390235016164 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 390235016165 dimerization interface [polypeptide binding]; other site 390235016166 Uncharacterized conserved protein [Function unknown]; Region: COG4275 390235016167 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 390235016168 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 390235016169 Chromate transporter; Region: Chromate_transp; pfam02417 390235016170 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 390235016171 H+ Antiporter protein; Region: 2A0121; TIGR00900 390235016172 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 390235016173 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 390235016174 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 390235016175 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 390235016176 putative metal binding site [ion binding]; other site 390235016177 putative homodimer interface [polypeptide binding]; other site 390235016178 putative homotetramer interface [polypeptide binding]; other site 390235016179 putative homodimer-homodimer interface [polypeptide binding]; other site 390235016180 putative allosteric switch controlling residues; other site 390235016181 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 390235016182 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 390235016183 putative homodimer interface [polypeptide binding]; other site 390235016184 putative homotetramer interface [polypeptide binding]; other site 390235016185 putative metal binding site [ion binding]; other site 390235016186 putative homodimer-homodimer interface [polypeptide binding]; other site 390235016187 putative allosteric switch controlling residues; other site 390235016188 Predicted membrane protein [Function unknown]; Region: COG1238 390235016189 TraX protein; Region: TraX; pfam05857 390235016190 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 390235016191 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 390235016192 Sulfate transporter family; Region: Sulfate_transp; pfam00916 390235016193 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 390235016194 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 390235016195 Ligand Binding Site [chemical binding]; other site 390235016196 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 390235016197 Ligand Binding Site [chemical binding]; other site 390235016198 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_27; cd04686 390235016199 nudix motif; other site 390235016200 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 390235016201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 390235016202 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 390235016203 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 390235016204 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 390235016205 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 390235016206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 390235016207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 390235016208 Transposase; Region: HTH_Tnp_1; pfam01527 390235016209 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 390235016210 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 390235016211 dimerization interface [polypeptide binding]; other site 390235016212 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 390235016213 dimer interface [polypeptide binding]; other site 390235016214 phosphorylation site [posttranslational modification] 390235016215 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 390235016216 ATP binding site [chemical binding]; other site 390235016217 Mg2+ binding site [ion binding]; other site 390235016218 G-X-G motif; other site 390235016219 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 390235016220 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 390235016221 active site 390235016222 phosphorylation site [posttranslational modification] 390235016223 intermolecular recognition site; other site 390235016224 dimerization interface [polypeptide binding]; other site 390235016225 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 390235016226 DNA binding site [nucleotide binding] 390235016227 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 390235016228 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 390235016229 Multicopper oxidase; Region: Cu-oxidase; pfam00394 390235016230 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 390235016231 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 390235016232 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 390235016233 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 390235016234 Predicted metal-binding protein [General function prediction only]; Region: COG3019 390235016235 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 390235016236 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 390235016237 E3 ubiquitin-protein ligase SopA; Provisional; Region: PRK15377 390235016238 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 390235016239 Integrase core domain; Region: rve; pfam00665 390235016240 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 390235016241 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 390235016242 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 390235016243 glutaminase active site [active] 390235016244 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 390235016245 dimer interface [polypeptide binding]; other site 390235016246 active site 390235016247 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 390235016248 dimer interface [polypeptide binding]; other site 390235016249 active site 390235016250 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 390235016251 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 390235016252 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 390235016253 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 390235016254 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 390235016255 Substrate binding site; other site 390235016256 Mg++ binding site; other site 390235016257 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 390235016258 active site 390235016259 substrate binding site [chemical binding]; other site 390235016260 CoA binding site [chemical binding]; other site 390235016261 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 390235016262 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 390235016263 gamma subunit interface [polypeptide binding]; other site 390235016264 epsilon subunit interface [polypeptide binding]; other site 390235016265 LBP interface [polypeptide binding]; other site 390235016266 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 390235016267 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 390235016268 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 390235016269 alpha subunit interaction interface [polypeptide binding]; other site 390235016270 Walker A motif; other site 390235016271 ATP binding site [chemical binding]; other site 390235016272 Walker B motif; other site 390235016273 inhibitor binding site; inhibition site 390235016274 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 390235016275 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 390235016276 core domain interface [polypeptide binding]; other site 390235016277 delta subunit interface [polypeptide binding]; other site 390235016278 epsilon subunit interface [polypeptide binding]; other site 390235016279 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 390235016280 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 390235016281 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 390235016282 beta subunit interaction interface [polypeptide binding]; other site 390235016283 Walker A motif; other site 390235016284 ATP binding site [chemical binding]; other site 390235016285 Walker B motif; other site 390235016286 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 390235016287 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 390235016288 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 390235016289 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 390235016290 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 390235016291 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 390235016292 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 390235016293 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 390235016294 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 390235016295 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 390235016296 ParB-like nuclease domain; Region: ParBc; pfam02195 390235016297 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 390235016298 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 390235016299 P loop; other site 390235016300 Nucleotide binding site [chemical binding]; other site 390235016301 DTAP/Switch II; other site 390235016302 Switch I; other site 390235016303 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 390235016304 Magnesium ion binding site [ion binding]; other site 390235016305 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 390235016306 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 390235016307 S-adenosylmethionine binding site [chemical binding]; other site 390235016308 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 390235016309 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 390235016310 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 390235016311 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 390235016312 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 390235016313 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 390235016314 trmE is a tRNA modification GTPase; Region: trmE; cd04164 390235016315 G1 box; other site 390235016316 GTP/Mg2+ binding site [chemical binding]; other site 390235016317 Switch I region; other site 390235016318 G2 box; other site 390235016319 Switch II region; other site 390235016320 G3 box; other site 390235016321 G4 box; other site 390235016322 G5 box; other site 390235016323 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 390235016324 membrane protein insertase; Provisional; Region: PRK01318 390235016325 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592