-- dump date 20140620_005736 -- class Genbank::misc_feature -- table misc_feature_note -- id note 399739000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 399739000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 399739000003 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 399739000004 Walker A motif; other site 399739000005 ATP binding site [chemical binding]; other site 399739000006 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 399739000007 Walker B motif; other site 399739000008 arginine finger; other site 399739000009 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 399739000010 DnaA box-binding interface [nucleotide binding]; other site 399739000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 399739000012 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 399739000013 putative DNA binding surface [nucleotide binding]; other site 399739000014 dimer interface [polypeptide binding]; other site 399739000015 beta-clamp/clamp loader binding surface; other site 399739000016 beta-clamp/translesion DNA polymerase binding surface; other site 399739000017 recombination protein F; Reviewed; Region: recF; PRK00064 399739000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739000019 Walker A/P-loop; other site 399739000020 ATP binding site [chemical binding]; other site 399739000021 Q-loop/lid; other site 399739000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739000023 ABC transporter signature motif; other site 399739000024 Walker B; other site 399739000025 D-loop; other site 399739000026 H-loop/switch region; other site 399739000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 399739000028 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 399739000029 ATP binding site [chemical binding]; other site 399739000030 Mg2+ binding site [ion binding]; other site 399739000031 G-X-G motif; other site 399739000032 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 399739000033 anchoring element; other site 399739000034 dimer interface [polypeptide binding]; other site 399739000035 ATP binding site [chemical binding]; other site 399739000036 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 399739000037 active site 399739000038 putative metal-binding site [ion binding]; other site 399739000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 399739000040 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 399739000041 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 399739000042 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739000043 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739000044 putative acyl-acceptor binding pocket; other site 399739000045 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 399739000046 active site 399739000047 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 399739000048 active site 399739000049 catalytic residues [active] 399739000050 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 399739000051 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739000052 Putative methyltransferase; Region: Methyltransf_20; pfam12147 399739000053 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 399739000054 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739000055 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739000056 putative acyl-acceptor binding pocket; other site 399739000057 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 399739000058 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 399739000059 active site 399739000060 motif I; other site 399739000061 motif II; other site 399739000062 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 399739000063 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 399739000064 dimer interface [polypeptide binding]; other site 399739000065 motif 1; other site 399739000066 active site 399739000067 motif 2; other site 399739000068 motif 3; other site 399739000069 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 399739000070 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 399739000071 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 399739000072 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 399739000073 putative acyl-acceptor binding pocket; other site 399739000074 PilZ domain; Region: PilZ; pfam07238 399739000075 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 399739000076 NlpC/P60 family; Region: NLPC_P60; pfam00877 399739000077 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 399739000078 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739000079 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739000080 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399739000081 HrpF protein; Region: HrpF; pfam06266 399739000082 HrpE/YscL/FliH and V-type ATPase subunit E; Region: HrpE; pfam06188 399739000083 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 399739000084 Type III secretion needle MxiH like; Region: MxiH; pfam09392 399739000085 HrpZ; Region: Hairpins; pfam04877 399739000086 HrpA pilus formation protein; Region: HrpA_pilin; pfam09589 399739000087 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 399739000088 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 399739000089 Walker A motif; other site 399739000090 ATP binding site [chemical binding]; other site 399739000091 Walker B motif; other site 399739000092 arginine finger; other site 399739000093 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739000094 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 399739000095 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 399739000096 Walker A motif; other site 399739000097 ATP binding site [chemical binding]; other site 399739000098 Walker B motif; other site 399739000099 arginine finger; other site 399739000100 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739000101 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739000102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739000103 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739000104 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739000105 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739000106 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739000107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739000108 HrpJ-like domain; Region: HrpJ; cl15454 399739000109 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 399739000110 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 399739000111 FHIPEP family; Region: FHIPEP; pfam00771 399739000112 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 399739000113 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 399739000114 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 399739000115 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 399739000116 Walker A motif; other site 399739000117 ATP binding site [chemical binding]; other site 399739000118 Walker B motif; other site 399739000119 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 399739000120 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 399739000121 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 399739000122 type III secretion system protein YscR; Provisional; Region: PRK12797 399739000123 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 399739000124 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 399739000125 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 399739000126 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 399739000127 hypothetical protein; Provisional; Region: PRK11212 399739000128 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 399739000129 TPR motif; other site 399739000130 TPR repeat; Region: TPR_11; pfam13414 399739000131 binding surface 399739000132 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 399739000133 TrkA-N domain; Region: TrkA_N; pfam02254 399739000134 TrkA-C domain; Region: TrkA_C; pfam02080 399739000135 TrkA-N domain; Region: TrkA_N; pfam02254 399739000136 TrkA-C domain; Region: TrkA_C; pfam02080 399739000137 16S rRNA methyltransferase B; Provisional; Region: PRK10901 399739000138 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 399739000139 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 399739000140 S-adenosylmethionine binding site [chemical binding]; other site 399739000141 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 399739000142 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 399739000143 putative active site [active] 399739000144 substrate binding site [chemical binding]; other site 399739000145 putative cosubstrate binding site; other site 399739000146 catalytic site [active] 399739000147 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 399739000148 substrate binding site [chemical binding]; other site 399739000149 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 399739000150 active site 399739000151 catalytic residues [active] 399739000152 metal binding site [ion binding]; metal-binding site 399739000153 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 399739000154 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739000155 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 399739000156 DNA protecting protein DprA; Region: dprA; TIGR00732 399739000157 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 399739000158 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 399739000159 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 399739000160 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 399739000161 NADP binding site [chemical binding]; other site 399739000162 dimer interface [polypeptide binding]; other site 399739000163 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 399739000164 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 399739000165 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 399739000166 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 399739000167 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 399739000168 shikimate binding site; other site 399739000169 NAD(P) binding site [chemical binding]; other site 399739000170 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 399739000171 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399739000172 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399739000173 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 399739000174 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 399739000175 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 399739000176 Sulfatase; Region: Sulfatase; cl17466 399739000177 choline-sulfatase; Region: chol_sulfatase; TIGR03417 399739000178 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 399739000179 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 399739000180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000181 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 399739000182 dimerization interface [polypeptide binding]; other site 399739000183 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 399739000184 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 399739000185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739000186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000187 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 399739000188 dimerization interface [polypeptide binding]; other site 399739000189 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 399739000190 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739000191 active site 399739000192 catalytic tetrad [active] 399739000193 glucose-1-dehydrogenase; Provisional; Region: PRK06947 399739000194 classical (c) SDRs; Region: SDR_c; cd05233 399739000195 NAD(P) binding site [chemical binding]; other site 399739000196 active site 399739000197 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 399739000198 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 399739000199 substrate binding site [chemical binding]; other site 399739000200 active site 399739000201 catalytic residues [active] 399739000202 heterodimer interface [polypeptide binding]; other site 399739000203 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 399739000204 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 399739000205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739000206 catalytic residue [active] 399739000207 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 399739000208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739000209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000210 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 399739000211 dimerization interface [polypeptide binding]; other site 399739000212 Dodecin; Region: Dodecin; pfam07311 399739000213 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739000214 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 399739000215 putative NAD(P) binding site [chemical binding]; other site 399739000216 active site 399739000217 putative substrate binding site [chemical binding]; other site 399739000218 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 399739000219 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 399739000220 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 399739000221 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 399739000222 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739000223 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 399739000224 active site 399739000225 phosphorylation site [posttranslational modification] 399739000226 intermolecular recognition site; other site 399739000227 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 399739000228 DNA binding residues [nucleotide binding] 399739000229 dimerization interface [polypeptide binding]; other site 399739000230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 399739000231 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 399739000232 Histidine kinase; Region: HisKA_3; pfam07730 399739000233 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 399739000234 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 399739000235 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 399739000236 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 399739000237 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 399739000238 DctM-like transporters; Region: DctM; pfam06808 399739000239 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 399739000240 active site 399739000241 phosphate binding residues; other site 399739000242 catalytic residues [active] 399739000243 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 399739000244 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 399739000245 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 399739000246 Protein of unknown function (DUF770); Region: DUF770; pfam05591 399739000247 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 399739000248 Protein of unknown function (DUF877); Region: DUF877; pfam05943 399739000249 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 399739000250 Uncharacterized conserved protein [Function unknown]; Region: COG4104 399739000251 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 399739000252 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 399739000253 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 399739000254 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 399739000255 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 399739000256 Walker A motif; other site 399739000257 ATP binding site [chemical binding]; other site 399739000258 Walker B motif; other site 399739000259 arginine finger; other site 399739000260 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 399739000261 Walker A motif; other site 399739000262 ATP binding site [chemical binding]; other site 399739000263 Walker B motif; other site 399739000264 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 399739000265 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399739000266 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 399739000267 Walker A motif; other site 399739000268 ATP binding site [chemical binding]; other site 399739000269 Walker B motif; other site 399739000270 arginine finger; other site 399739000271 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739000272 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 399739000273 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 399739000274 phosphopeptide binding site; other site 399739000275 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 399739000276 Cell division protein 48 (CDC48) N-terminal domain; Region: CDC48_N; smart01073 399739000277 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 399739000278 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 399739000279 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 399739000280 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 399739000281 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 399739000282 G1 box; other site 399739000283 GTP/Mg2+ binding site [chemical binding]; other site 399739000284 Switch I region; other site 399739000285 G3 box; other site 399739000286 Switch II region; other site 399739000287 G4 box; other site 399739000288 G5 box; other site 399739000289 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 399739000290 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 399739000291 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 399739000292 Protein phosphatase 2C; Region: PP2C; pfam00481 399739000293 active site 399739000294 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 399739000295 Catalytic domain of Protein Kinases; Region: PKc; cd00180 399739000296 active site 399739000297 ATP binding site [chemical binding]; other site 399739000298 substrate binding site [chemical binding]; other site 399739000299 activation loop (A-loop); other site 399739000300 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 399739000301 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 399739000302 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 399739000303 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 399739000304 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 399739000305 catalytic residue [active] 399739000306 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 399739000307 Tetratricopeptide repeat; Region: TPR_16; pfam13432 399739000308 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 399739000309 Predicted membrane protein [Function unknown]; Region: COG2261 399739000310 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 399739000311 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739000312 substrate binding pocket [chemical binding]; other site 399739000313 membrane-bound complex binding site; other site 399739000314 hinge residues; other site 399739000315 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 399739000316 ATP-grasp domain; Region: ATP-grasp; pfam02222 399739000317 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 399739000318 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 399739000319 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 399739000320 NAD binding site [chemical binding]; other site 399739000321 substrate binding site [chemical binding]; other site 399739000322 catalytic Zn binding site [ion binding]; other site 399739000323 tetramer interface [polypeptide binding]; other site 399739000324 structural Zn binding site [ion binding]; other site 399739000325 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739000326 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739000327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739000328 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 399739000329 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 399739000330 active site 399739000331 Zn binding site [ion binding]; other site 399739000332 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399739000333 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739000334 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739000335 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 399739000336 conserved cys residue [active] 399739000337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739000338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739000339 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739000340 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739000341 cell density-dependent motility repressor; Provisional; Region: PRK10082 399739000342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000343 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 399739000344 dimerization interface [polypeptide binding]; other site 399739000345 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 399739000346 Aspartase; Region: Aspartase; cd01357 399739000347 active sites [active] 399739000348 tetramer interface [polypeptide binding]; other site 399739000349 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399739000350 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399739000351 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 399739000352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739000353 DNA-binding site [nucleotide binding]; DNA binding site 399739000354 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 399739000355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739000356 homodimer interface [polypeptide binding]; other site 399739000357 catalytic residue [active] 399739000358 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 399739000359 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739000360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739000361 Coenzyme A binding pocket [chemical binding]; other site 399739000362 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 399739000363 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739000364 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399739000365 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 399739000366 non-specific DNA binding site [nucleotide binding]; other site 399739000367 salt bridge; other site 399739000368 sequence-specific DNA binding site [nucleotide binding]; other site 399739000369 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 399739000370 amino acid carrier protein; Region: agcS; TIGR00835 399739000371 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 399739000372 active site 399739000373 homodimer interface [polypeptide binding]; other site 399739000374 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739000375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739000376 Coenzyme A binding pocket [chemical binding]; other site 399739000377 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 399739000378 homotrimer interaction site [polypeptide binding]; other site 399739000379 putative active site [active] 399739000380 glutaminase; Provisional; Region: PRK00971 399739000381 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 399739000382 Predicted permeases [General function prediction only]; Region: COG0679 399739000383 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 399739000384 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 399739000385 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 399739000386 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399739000387 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739000388 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 399739000389 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 399739000390 Subunit I/III interface [polypeptide binding]; other site 399739000391 D-pathway; other site 399739000392 Subunit I/VIIc interface [polypeptide binding]; other site 399739000393 Subunit I/IV interface [polypeptide binding]; other site 399739000394 Subunit I/II interface [polypeptide binding]; other site 399739000395 Low-spin heme (heme a) binding site [chemical binding]; other site 399739000396 Subunit I/VIIa interface [polypeptide binding]; other site 399739000397 Subunit I/VIa interface [polypeptide binding]; other site 399739000398 Dimer interface; other site 399739000399 Putative water exit pathway; other site 399739000400 Binuclear center (heme a3/CuB) [ion binding]; other site 399739000401 K-pathway; other site 399739000402 Subunit I/Vb interface [polypeptide binding]; other site 399739000403 Putative proton exit pathway; other site 399739000404 Subunit I/VIb interface; other site 399739000405 Subunit I/VIc interface [polypeptide binding]; other site 399739000406 Electron transfer pathway; other site 399739000407 Subunit I/VIIIb interface [polypeptide binding]; other site 399739000408 Subunit I/VIIb interface [polypeptide binding]; other site 399739000409 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 399739000410 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 399739000411 Subunit III/VIIa interface [polypeptide binding]; other site 399739000412 Phospholipid binding site [chemical binding]; other site 399739000413 Subunit I/III interface [polypeptide binding]; other site 399739000414 Subunit III/VIb interface [polypeptide binding]; other site 399739000415 Subunit III/VIa interface; other site 399739000416 Subunit III/Vb interface [polypeptide binding]; other site 399739000417 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 399739000418 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 399739000419 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 399739000420 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 399739000421 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 399739000422 UbiA prenyltransferase family; Region: UbiA; pfam01040 399739000423 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 399739000424 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 399739000425 Cu(I) binding site [ion binding]; other site 399739000426 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 399739000427 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 399739000428 putative active site [active] 399739000429 putative substrate binding site [chemical binding]; other site 399739000430 ATP binding site [chemical binding]; other site 399739000431 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 399739000432 DNA polymerase I; Provisional; Region: PRK05755 399739000433 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 399739000434 active site 399739000435 metal binding site 1 [ion binding]; metal-binding site 399739000436 putative 5' ssDNA interaction site; other site 399739000437 metal binding site 3; metal-binding site 399739000438 metal binding site 2 [ion binding]; metal-binding site 399739000439 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 399739000440 putative DNA binding site [nucleotide binding]; other site 399739000441 putative metal binding site [ion binding]; other site 399739000442 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 399739000443 active site 399739000444 catalytic site [active] 399739000445 substrate binding site [chemical binding]; other site 399739000446 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 399739000447 active site 399739000448 DNA binding site [nucleotide binding] 399739000449 catalytic site [active] 399739000450 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 399739000451 G1 box; other site 399739000452 GTP/Mg2+ binding site [chemical binding]; other site 399739000453 Switch I region; other site 399739000454 G2 box; other site 399739000455 G3 box; other site 399739000456 Switch II region; other site 399739000457 G4 box; other site 399739000458 G5 box; other site 399739000459 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 399739000460 Cytochrome c553 [Energy production and conversion]; Region: COG2863 399739000461 Cytochrome c; Region: Cytochrom_C; cl11414 399739000462 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 399739000463 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 399739000464 catalytic residues [active] 399739000465 hinge region; other site 399739000466 alpha helical domain; other site 399739000467 putative catalytic site [active] 399739000468 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399739000469 putative metal binding site [ion binding]; other site 399739000470 putative phosphate binding site [ion binding]; other site 399739000471 putative catalytic site [active] 399739000472 putative phosphate binding site [ion binding]; other site 399739000473 putative metal binding site [ion binding]; other site 399739000474 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739000475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739000476 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739000477 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739000478 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739000479 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739000480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739000481 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739000482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739000483 metal binding site [ion binding]; metal-binding site 399739000484 active site 399739000485 I-site; other site 399739000486 xanthine permease; Region: pbuX; TIGR03173 399739000487 MarC family integral membrane protein; Region: MarC; cl00919 399739000488 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 399739000489 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 399739000490 amidase catalytic site [active] 399739000491 Zn binding residues [ion binding]; other site 399739000492 substrate binding site [chemical binding]; other site 399739000493 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399739000494 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 399739000495 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 399739000496 Response regulator receiver domain; Region: Response_reg; pfam00072 399739000497 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 399739000498 active site 399739000499 phosphorylation site [posttranslational modification] 399739000500 intermolecular recognition site; other site 399739000501 dimerization interface [polypeptide binding]; other site 399739000502 CHASE3 domain; Region: CHASE3; pfam05227 399739000503 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399739000504 GAF domain; Region: GAF; pfam01590 399739000505 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 399739000506 dimer interface [polypeptide binding]; other site 399739000507 phosphorylation site [posttranslational modification] 399739000508 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 399739000509 ATP binding site [chemical binding]; other site 399739000510 Mg2+ binding site [ion binding]; other site 399739000511 G-X-G motif; other site 399739000512 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 399739000513 Response regulator receiver domain; Region: Response_reg; pfam00072 399739000514 active site 399739000515 phosphorylation site [posttranslational modification] 399739000516 intermolecular recognition site; other site 399739000517 dimerization interface [polypeptide binding]; other site 399739000518 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739000519 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 399739000520 active site 399739000521 phosphorylation site [posttranslational modification] 399739000522 intermolecular recognition site; other site 399739000523 Response regulator receiver domain; Region: Response_reg; pfam00072 399739000524 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 399739000525 active site 399739000526 phosphorylation site [posttranslational modification] 399739000527 intermolecular recognition site; other site 399739000528 dimerization interface [polypeptide binding]; other site 399739000529 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 399739000530 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 399739000531 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 399739000532 CheB methylesterase; Region: CheB_methylest; pfam01339 399739000533 Response regulator receiver domain; Region: Response_reg; pfam00072 399739000534 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 399739000535 active site 399739000536 phosphorylation site [posttranslational modification] 399739000537 intermolecular recognition site; other site 399739000538 dimerization interface [polypeptide binding]; other site 399739000539 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739000540 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 399739000541 dimer interface [polypeptide binding]; other site 399739000542 phosphorylation site [posttranslational modification] 399739000543 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 399739000544 ATP binding site [chemical binding]; other site 399739000545 Mg2+ binding site [ion binding]; other site 399739000546 G-X-G motif; other site 399739000547 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 399739000548 dimerization interface [polypeptide binding]; other site 399739000549 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739000550 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 399739000551 putative active site [active] 399739000552 heme pocket [chemical binding]; other site 399739000553 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 399739000554 dimer interface [polypeptide binding]; other site 399739000555 phosphorylation site [posttranslational modification] 399739000556 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 399739000557 ATP binding site [chemical binding]; other site 399739000558 Mg2+ binding site [ion binding]; other site 399739000559 G-X-G motif; other site 399739000560 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739000561 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 399739000562 active site 399739000563 phosphorylation site [posttranslational modification] 399739000564 intermolecular recognition site; other site 399739000565 dimerization interface [polypeptide binding]; other site 399739000566 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 399739000567 Walker A motif; other site 399739000568 ATP binding site [chemical binding]; other site 399739000569 Walker B motif; other site 399739000570 arginine finger; other site 399739000571 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739000572 BON domain; Region: BON; pfam04972 399739000573 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 399739000574 BON domain; Region: BON; pfam04972 399739000575 BON domain; Region: BON; pfam04972 399739000576 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 399739000577 PBP superfamily domain; Region: PBP_like_2; cl17296 399739000578 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399739000579 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 399739000580 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 399739000581 ABC-ATPase subunit interface; other site 399739000582 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 399739000583 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 399739000584 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 399739000585 dimer interface [polypeptide binding]; other site 399739000586 conserved gate region; other site 399739000587 putative PBP binding loops; other site 399739000588 ABC-ATPase subunit interface; other site 399739000589 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 399739000590 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 399739000591 Walker A/P-loop; other site 399739000592 ATP binding site [chemical binding]; other site 399739000593 Q-loop/lid; other site 399739000594 ABC transporter signature motif; other site 399739000595 Walker B; other site 399739000596 D-loop; other site 399739000597 H-loop/switch region; other site 399739000598 transcriptional regulator PhoU; Provisional; Region: PRK11115 399739000599 PhoU domain; Region: PhoU; pfam01895 399739000600 PhoU domain; Region: PhoU; pfam01895 399739000601 Response regulator receiver domain; Region: Response_reg; pfam00072 399739000602 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 399739000603 active site 399739000604 phosphorylation site [posttranslational modification] 399739000605 intermolecular recognition site; other site 399739000606 dimerization interface [polypeptide binding]; other site 399739000607 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739000608 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399739000609 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739000610 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 399739000611 flagellar capping protein; Reviewed; Region: fliD; PRK08032 399739000612 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 399739000613 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 399739000614 Flagellar protein FliS; Region: FliS; cl00654 399739000615 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 399739000616 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 399739000617 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 399739000618 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739000619 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399739000620 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 399739000621 DNA binding residues [nucleotide binding] 399739000622 flagellar motor protein MotA; Provisional; Region: PRK12482 399739000623 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 399739000624 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 399739000625 hypothetical protein; Validated; Region: PRK06778 399739000626 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739000627 ligand binding site [chemical binding]; other site 399739000628 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 399739000629 DNA binding site [nucleotide binding] 399739000630 flagellin; Provisional; Region: PRK12802 399739000631 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399739000632 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399739000633 Rubredoxin [Energy production and conversion]; Region: COG1773 399739000634 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 399739000635 iron binding site [ion binding]; other site 399739000636 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 399739000637 L-lactate permease; Region: Lactate_perm; cl00701 399739000638 malate synthase G; Provisional; Region: PRK02999 399739000639 active site 399739000640 Domain of unknown function (DUF336); Region: DUF336; cl01249 399739000641 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 399739000642 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 399739000643 Cysteine-rich domain; Region: CCG; pfam02754 399739000644 Cysteine-rich domain; Region: CCG; pfam02754 399739000645 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 399739000646 FAD binding domain; Region: FAD_binding_4; pfam01565 399739000647 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 399739000648 FAD binding domain; Region: FAD_binding_4; pfam01565 399739000649 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 399739000650 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739000651 DNA-binding site [nucleotide binding]; DNA binding site 399739000652 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399739000653 SAF-like; Region: SAF_2; pfam13144 399739000654 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 399739000655 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 399739000656 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 399739000657 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 399739000658 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739000659 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 399739000660 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 399739000661 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 399739000662 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 399739000663 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399739000664 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 399739000665 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739000666 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 399739000667 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399739000668 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 399739000669 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 399739000670 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739000671 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 399739000672 Flagellar L-ring protein; Region: FlgH; pfam02107 399739000673 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 399739000674 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 399739000675 Rod binding protein; Region: Rod-binding; cl01626 399739000676 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 399739000677 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 399739000678 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739000679 catalytic residue [active] 399739000680 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 399739000681 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 399739000682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739000683 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 399739000684 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399739000685 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739000686 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739000687 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 399739000688 putative active site [active] 399739000689 Zn binding site [ion binding]; other site 399739000690 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 399739000691 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 399739000692 putative active site [active] 399739000693 putative metal binding site [ion binding]; other site 399739000694 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 399739000695 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 399739000696 putative substrate translocation pore; other site 399739000697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739000698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000699 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 399739000700 dimerization interface [polypeptide binding]; other site 399739000701 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739000702 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739000703 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 399739000704 PAS fold; Region: PAS_3; pfam08447 399739000705 putative active site [active] 399739000706 heme pocket [chemical binding]; other site 399739000707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739000708 metal binding site [ion binding]; metal-binding site 399739000709 active site 399739000710 I-site; other site 399739000711 putative glutathione S-transferase; Provisional; Region: PRK10357 399739000712 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 399739000713 putative C-terminal domain interface [polypeptide binding]; other site 399739000714 putative GSH binding site (G-site) [chemical binding]; other site 399739000715 putative dimer interface [polypeptide binding]; other site 399739000716 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 399739000717 N-terminal domain interface [polypeptide binding]; other site 399739000718 dimer interface [polypeptide binding]; other site 399739000719 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 399739000720 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 399739000721 dimer interface [polypeptide binding]; other site 399739000722 NADP binding site [chemical binding]; other site 399739000723 catalytic residues [active] 399739000724 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 399739000725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739000726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739000727 Zn2+ binding site [ion binding]; other site 399739000728 Mg2+ binding site [ion binding]; other site 399739000729 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739000730 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 399739000731 DNA binding residues [nucleotide binding] 399739000732 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 399739000733 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 399739000734 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 399739000735 tetramerization interface [polypeptide binding]; other site 399739000736 NAD(P) binding site [chemical binding]; other site 399739000737 catalytic residues [active] 399739000738 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 399739000739 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 399739000740 inhibitor-cofactor binding pocket; inhibition site 399739000741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739000742 catalytic residue [active] 399739000743 NolX protein; Region: NolX; pfam05819 399739000744 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739000745 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739000746 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 399739000747 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 399739000748 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 399739000749 NAD(P) binding site [chemical binding]; other site 399739000750 catalytic residues [active] 399739000751 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 399739000752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739000753 putative substrate translocation pore; other site 399739000754 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739000755 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739000756 ligand binding site [chemical binding]; other site 399739000757 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 399739000758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739000759 DNA-binding site [nucleotide binding]; DNA binding site 399739000760 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 399739000761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739000762 homodimer interface [polypeptide binding]; other site 399739000763 catalytic residue [active] 399739000764 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 399739000765 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739000766 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739000767 Flagellin N-methylase; Region: FliB; cl00497 399739000768 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739000769 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 399739000770 putative DNA binding site [nucleotide binding]; other site 399739000771 putative Zn2+ binding site [ion binding]; other site 399739000772 AsnC family; Region: AsnC_trans_reg; pfam01037 399739000773 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 399739000774 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739000775 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 399739000776 homotrimer interaction site [polypeptide binding]; other site 399739000777 putative active site [active] 399739000778 alanine racemase; Reviewed; Region: dadX; PRK03646 399739000779 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 399739000780 active site 399739000781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739000782 substrate binding site [chemical binding]; other site 399739000783 catalytic residues [active] 399739000784 dimer interface [polypeptide binding]; other site 399739000785 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 399739000786 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 399739000787 non-specific DNA binding site [nucleotide binding]; other site 399739000788 salt bridge; other site 399739000789 sequence-specific DNA binding site [nucleotide binding]; other site 399739000790 Cupin domain; Region: Cupin_2; pfam07883 399739000791 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 399739000792 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 399739000793 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 399739000794 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739000795 active site 399739000796 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 399739000797 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 399739000798 Part of AAA domain; Region: AAA_19; pfam13245 399739000799 Family description; Region: UvrD_C_2; pfam13538 399739000800 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739000801 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739000802 metal binding site [ion binding]; metal-binding site 399739000803 active site 399739000804 I-site; other site 399739000805 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 399739000806 multidrug efflux protein NorA; Provisional; Region: PRK00187 399739000807 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 399739000808 cation binding site [ion binding]; other site 399739000809 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399739000810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739000811 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 399739000812 dimerization interface [polypeptide binding]; other site 399739000813 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 399739000814 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 399739000815 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 399739000816 Walker A motif; other site 399739000817 ATP binding site [chemical binding]; other site 399739000818 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 399739000819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 399739000820 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 399739000821 Nitrogen regulatory protein P-II; Region: P-II; smart00938 399739000822 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 399739000823 Uncharacterized conserved protein [Function unknown]; Region: COG0432 399739000824 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 399739000825 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 399739000826 motif II; other site 399739000827 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 399739000828 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 399739000829 active site 399739000830 DNA binding site [nucleotide binding] 399739000831 Int/Topo IB signature motif; other site 399739000832 Protein of unknown function, DUF484; Region: DUF484; pfam04340 399739000833 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 399739000834 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 399739000835 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 399739000836 diaminopimelate decarboxylase; Region: lysA; TIGR01048 399739000837 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 399739000838 active site 399739000839 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739000840 substrate binding site [chemical binding]; other site 399739000841 catalytic residues [active] 399739000842 dimer interface [polypeptide binding]; other site 399739000843 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739000844 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739000845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739000846 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 399739000847 putative iron binding site [ion binding]; other site 399739000848 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 399739000849 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 399739000850 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399739000851 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 399739000852 active site flap/lid [active] 399739000853 nucleophilic elbow; other site 399739000854 catalytic triad [active] 399739000855 adenylate cyclase; Provisional; Region: cyaA; PRK09450 399739000856 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 399739000857 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 399739000858 Phosphate-starvation-inducible E; Region: PsiE; cl01264 399739000859 argininosuccinate lyase; Provisional; Region: PRK00855 399739000860 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 399739000861 active sites [active] 399739000862 tetramer interface [polypeptide binding]; other site 399739000863 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 399739000864 Histidine kinase; Region: His_kinase; pfam06580 399739000865 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 399739000866 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 399739000867 active site 399739000868 phosphorylation site [posttranslational modification] 399739000869 intermolecular recognition site; other site 399739000870 dimerization interface [polypeptide binding]; other site 399739000871 LytTr DNA-binding domain; Region: LytTR; pfam04397 399739000872 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 399739000873 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 399739000874 domain interfaces; other site 399739000875 active site 399739000876 uroporphyrinogen-III synthase; Validated; Region: PRK05752 399739000877 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 399739000878 active site 399739000879 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 399739000880 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 399739000881 HemY protein N-terminus; Region: HemY_N; pfam07219 399739000882 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 399739000883 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 399739000884 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399739000885 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399739000886 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739000887 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 399739000888 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 399739000889 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 399739000890 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739000891 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739000892 ABC transporter; Region: ABC_tran_2; pfam12848 399739000893 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739000894 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399739000895 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739000896 LysE type translocator; Region: LysE; cl00565 399739000897 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739000898 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399739000899 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 399739000900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 399739000901 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 399739000902 CoenzymeA binding site [chemical binding]; other site 399739000903 subunit interaction site [polypeptide binding]; other site 399739000904 PHB binding site; other site 399739000905 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 399739000906 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 399739000907 conserved cys residue [active] 399739000908 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 399739000909 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 399739000910 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 399739000911 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 399739000912 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 399739000913 dimer interface [polypeptide binding]; other site 399739000914 active site 399739000915 aspartate-rich active site metal binding site; other site 399739000916 allosteric magnesium binding site [ion binding]; other site 399739000917 Schiff base residues; other site 399739000918 polyphosphate kinase; Provisional; Region: PRK05443 399739000919 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 399739000920 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 399739000921 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 399739000922 putative domain interface [polypeptide binding]; other site 399739000923 putative active site [active] 399739000924 catalytic site [active] 399739000925 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 399739000926 putative domain interface [polypeptide binding]; other site 399739000927 putative active site [active] 399739000928 catalytic site [active] 399739000929 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 399739000930 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 399739000931 ureidoglycolate hydrolase; Provisional; Region: PRK03606 399739000932 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 399739000933 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 399739000934 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739000935 Walker A/P-loop; other site 399739000936 ATP binding site [chemical binding]; other site 399739000937 Q-loop/lid; other site 399739000938 ABC transporter signature motif; other site 399739000939 Walker B; other site 399739000940 D-loop; other site 399739000941 H-loop/switch region; other site 399739000942 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 399739000943 dimer interface [polypeptide binding]; other site 399739000944 conserved gate region; other site 399739000945 putative PBP binding loops; other site 399739000946 ABC-ATPase subunit interface; other site 399739000947 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 399739000948 dimer interface [polypeptide binding]; other site 399739000949 conserved gate region; other site 399739000950 ABC-ATPase subunit interface; other site 399739000951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739000952 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 399739000953 substrate binding pocket [chemical binding]; other site 399739000954 membrane-bound complex binding site; other site 399739000955 hinge residues; other site 399739000956 Transcriptional regulators [Transcription]; Region: FadR; COG2186 399739000957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739000958 DNA-binding site [nucleotide binding]; DNA binding site 399739000959 FCD domain; Region: FCD; pfam07729 399739000960 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 399739000961 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399739000962 catalytic residues [active] 399739000963 transcription termination factor Rho; Provisional; Region: rho; PRK09376 399739000964 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 399739000965 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 399739000966 RNA binding site [nucleotide binding]; other site 399739000967 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 399739000968 multimer interface [polypeptide binding]; other site 399739000969 Walker A motif; other site 399739000970 ATP binding site [chemical binding]; other site 399739000971 Walker B motif; other site 399739000972 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 399739000973 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 399739000974 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 399739000975 catalytic loop [active] 399739000976 iron binding site [ion binding]; other site 399739000977 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 399739000978 FAD binding pocket [chemical binding]; other site 399739000979 FAD binding motif [chemical binding]; other site 399739000980 phosphate binding motif [ion binding]; other site 399739000981 beta-alpha-beta structure motif; other site 399739000982 NAD binding pocket [chemical binding]; other site 399739000983 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 399739000984 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 399739000985 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 399739000986 NAD(P) binding site [chemical binding]; other site 399739000987 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 399739000988 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399739000989 ABC-2 type transporter; Region: ABC2_membrane; cl17235 399739000990 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 399739000991 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399739000992 Walker A/P-loop; other site 399739000993 ATP binding site [chemical binding]; other site 399739000994 Q-loop/lid; other site 399739000995 ABC transporter signature motif; other site 399739000996 Walker B; other site 399739000997 D-loop; other site 399739000998 H-loop/switch region; other site 399739000999 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399739001000 Walker A/P-loop; other site 399739001001 ATP binding site [chemical binding]; other site 399739001002 Q-loop/lid; other site 399739001003 ABC transporter signature motif; other site 399739001004 Walker B; other site 399739001005 D-loop; other site 399739001006 H-loop/switch region; other site 399739001007 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399739001008 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399739001009 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 399739001010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739001011 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739001012 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 399739001013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739001014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001015 metal binding site [ion binding]; metal-binding site 399739001016 active site 399739001017 I-site; other site 399739001018 EVE domain; Region: EVE; cl00728 399739001019 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 399739001020 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 399739001021 TIGR02449 family protein; Region: TIGR02449 399739001022 hypothetical protein; Reviewed; Region: PRK02166 399739001023 proline aminopeptidase P II; Provisional; Region: PRK10879 399739001024 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 399739001025 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 399739001026 active site 399739001027 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 399739001028 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 399739001029 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 399739001030 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 399739001031 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 399739001032 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 399739001033 dimer interface [polypeptide binding]; other site 399739001034 conserved gate region; other site 399739001035 putative PBP binding loops; other site 399739001036 ABC-ATPase subunit interface; other site 399739001037 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 399739001038 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739001039 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 399739001040 lipoyl attachment site [posttranslational modification]; other site 399739001041 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 399739001042 dimerization interface [polypeptide binding]; other site 399739001043 putative DNA binding site [nucleotide binding]; other site 399739001044 putative Zn2+ binding site [ion binding]; other site 399739001045 Predicted transporter component [General function prediction only]; Region: COG2391 399739001046 Sulphur transport; Region: Sulf_transp; pfam04143 399739001047 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 399739001048 agmatine deiminase; Provisional; Region: PRK13551 399739001049 agmatine deiminase; Region: agmatine_aguA; TIGR03380 399739001050 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 399739001051 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 399739001052 putative active site; other site 399739001053 catalytic triad [active] 399739001054 putative dimer interface [polypeptide binding]; other site 399739001055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739001056 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739001057 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 399739001058 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739001059 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739001060 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739001061 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739001062 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739001063 putative aminotransferase; Validated; Region: PRK07480 399739001064 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 399739001065 inhibitor-cofactor binding pocket; inhibition site 399739001066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739001067 catalytic residue [active] 399739001068 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399739001069 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739001070 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399739001071 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739001072 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399739001073 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739001074 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 399739001075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739001076 Walker A/P-loop; other site 399739001077 ATP binding site [chemical binding]; other site 399739001078 Q-loop/lid; other site 399739001079 ABC transporter signature motif; other site 399739001080 Walker B; other site 399739001081 D-loop; other site 399739001082 H-loop/switch region; other site 399739001083 TOBE domain; Region: TOBE_2; pfam08402 399739001084 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 399739001085 dimer interface [polypeptide binding]; other site 399739001086 conserved gate region; other site 399739001087 putative PBP binding loops; other site 399739001088 ABC-ATPase subunit interface; other site 399739001089 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739001090 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 399739001091 dimer interface [polypeptide binding]; other site 399739001092 conserved gate region; other site 399739001093 putative PBP binding loops; other site 399739001094 ABC-ATPase subunit interface; other site 399739001095 Uncharacterized conserved protein [Function unknown]; Region: COG3025 399739001096 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 399739001097 putative active site [active] 399739001098 putative metal binding residues [ion binding]; other site 399739001099 signature motif; other site 399739001100 putative triphosphate binding site [ion binding]; other site 399739001101 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 399739001102 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399739001103 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399739001104 acetylornithine deacetylase; Provisional; Region: PRK05111 399739001105 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 399739001106 metal binding site [ion binding]; metal-binding site 399739001107 putative dimer interface [polypeptide binding]; other site 399739001108 N-acetylglutamate synthase; Validated; Region: PRK05279 399739001109 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 399739001110 putative feedback inhibition sensing region; other site 399739001111 putative nucleotide binding site [chemical binding]; other site 399739001112 putative substrate binding site [chemical binding]; other site 399739001113 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 399739001114 Ribosome modulation factor; Region: RMF; cl01207 399739001115 glutamate--cysteine ligase; Provisional; Region: PRK02107 399739001116 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 399739001117 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 399739001118 CoenzymeA binding site [chemical binding]; other site 399739001119 subunit interaction site [polypeptide binding]; other site 399739001120 PHB binding site; other site 399739001121 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 399739001122 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 399739001123 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 399739001124 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 399739001125 RNA binding site [nucleotide binding]; other site 399739001126 osmolarity response regulator; Provisional; Region: ompR; PRK09468 399739001127 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 399739001128 active site 399739001129 phosphorylation site [posttranslational modification] 399739001130 intermolecular recognition site; other site 399739001131 dimerization interface [polypeptide binding]; other site 399739001132 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 399739001133 DNA binding site [nucleotide binding] 399739001134 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 399739001135 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 399739001136 dimerization interface [polypeptide binding]; other site 399739001137 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 399739001138 ATP binding site [chemical binding]; other site 399739001139 Mg2+ binding site [ion binding]; other site 399739001140 G-X-G motif; other site 399739001141 MASE1; Region: MASE1; cl17823 399739001142 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 399739001143 PAS domain; Region: PAS_9; pfam13426 399739001144 putative active site [active] 399739001145 heme pocket [chemical binding]; other site 399739001146 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 399739001147 PAS domain; Region: PAS_9; pfam13426 399739001148 putative active site [active] 399739001149 heme pocket [chemical binding]; other site 399739001150 PAS domain S-box; Region: sensory_box; TIGR00229 399739001151 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 399739001152 putative active site [active] 399739001153 heme pocket [chemical binding]; other site 399739001154 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739001155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001156 metal binding site [ion binding]; metal-binding site 399739001157 active site 399739001158 I-site; other site 399739001159 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 399739001160 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 399739001161 dimer interface [polypeptide binding]; other site 399739001162 catalytic triad [active] 399739001163 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 399739001164 RimK-like ATP-grasp domain; Region: RimK; pfam08443 399739001165 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 399739001166 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 399739001167 RNA binding surface [nucleotide binding]; other site 399739001168 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 399739001169 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 399739001170 active site 399739001171 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 399739001172 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 399739001173 dimerization interface [polypeptide binding]; other site 399739001174 domain crossover interface; other site 399739001175 redox-dependent activation switch; other site 399739001176 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 399739001177 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 399739001178 active site 399739001179 substrate-binding site [chemical binding]; other site 399739001180 metal-binding site [ion binding] 399739001181 ATP binding site [chemical binding]; other site 399739001182 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 399739001183 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 399739001184 ATP binding site [chemical binding]; other site 399739001185 putative Mg++ binding site [ion binding]; other site 399739001186 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 399739001187 nucleotide binding region [chemical binding]; other site 399739001188 ATP-binding site [chemical binding]; other site 399739001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 399739001190 Protein of unknown function (DUF330); Region: DUF330; cl01135 399739001191 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 399739001192 mce related protein; Region: MCE; pfam02470 399739001193 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 399739001194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739001195 Walker A/P-loop; other site 399739001196 ATP binding site [chemical binding]; other site 399739001197 Q-loop/lid; other site 399739001198 ABC transporter signature motif; other site 399739001199 Walker B; other site 399739001200 D-loop; other site 399739001201 H-loop/switch region; other site 399739001202 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 399739001203 Permease; Region: Permease; pfam02405 399739001204 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 399739001205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 399739001206 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 399739001207 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739001208 active site 399739001209 catalytic tetrad [active] 399739001210 TLC ATP/ADP transporter; Region: TLC; cl03940 399739001211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739001212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739001213 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 399739001214 dimerization interface [polypeptide binding]; other site 399739001215 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 399739001216 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399739001217 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399739001218 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399739001219 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739001220 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739001221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739001222 active site 399739001223 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739001224 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 399739001225 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 399739001226 putative active site [active] 399739001227 metal binding site [ion binding]; metal-binding site 399739001228 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 399739001229 active site 399739001230 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 399739001231 PBP superfamily domain; Region: PBP_like; pfam12727 399739001232 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 399739001233 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 399739001234 putative dimer interface [polypeptide binding]; other site 399739001235 [2Fe-2S] cluster binding site [ion binding]; other site 399739001236 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 399739001237 putative dimer interface [polypeptide binding]; other site 399739001238 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 399739001239 SLBB domain; Region: SLBB; pfam10531 399739001240 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 399739001241 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 399739001242 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 399739001243 catalytic loop [active] 399739001244 iron binding site [ion binding]; other site 399739001245 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 399739001246 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 399739001247 [4Fe-4S] binding site [ion binding]; other site 399739001248 molybdopterin cofactor binding site; other site 399739001249 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 399739001250 molybdopterin cofactor binding site; other site 399739001251 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 399739001252 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 399739001253 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 399739001254 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 399739001255 motif II; other site 399739001256 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 399739001257 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 399739001258 dimer interface [polypeptide binding]; other site 399739001259 ADP-ribose binding site [chemical binding]; other site 399739001260 active site 399739001261 nudix motif; other site 399739001262 metal binding site [ion binding]; metal-binding site 399739001263 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 399739001264 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 399739001265 active site 399739001266 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 399739001267 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 399739001268 active site 399739001269 dihydroorotase; Validated; Region: pyrC; PRK09357 399739001270 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 399739001271 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 399739001272 active site 399739001273 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 399739001274 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 399739001275 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 399739001276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739001277 active site 399739001278 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 399739001279 hypothetical protein; Validated; Region: PRK00228 399739001280 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 399739001281 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399739001282 glutathione synthetase; Provisional; Region: PRK05246 399739001283 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 399739001284 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 399739001285 Response regulator receiver domain; Region: Response_reg; pfam00072 399739001286 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 399739001287 active site 399739001288 phosphorylation site [posttranslational modification] 399739001289 intermolecular recognition site; other site 399739001290 dimerization interface [polypeptide binding]; other site 399739001291 Response regulator receiver domain; Region: Response_reg; pfam00072 399739001292 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 399739001293 active site 399739001294 phosphorylation site [posttranslational modification] 399739001295 intermolecular recognition site; other site 399739001296 dimerization interface [polypeptide binding]; other site 399739001297 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 399739001298 putative CheA interaction surface; other site 399739001299 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 399739001300 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739001301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739001302 dimer interface [polypeptide binding]; other site 399739001303 putative CheW interface [polypeptide binding]; other site 399739001304 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 399739001305 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 399739001306 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 399739001307 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 399739001308 putative binding surface; other site 399739001309 active site 399739001310 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 399739001311 putative binding surface; other site 399739001312 active site 399739001313 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 399739001314 putative binding surface; other site 399739001315 active site 399739001316 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 399739001317 putative binding surface; other site 399739001318 active site 399739001319 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 399739001320 putative binding surface; other site 399739001321 active site 399739001322 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 399739001323 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 399739001324 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 399739001325 ATP binding site [chemical binding]; other site 399739001326 Mg2+ binding site [ion binding]; other site 399739001327 G-X-G motif; other site 399739001328 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 399739001329 Response regulator receiver domain; Region: Response_reg; pfam00072 399739001330 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 399739001331 active site 399739001332 phosphorylation site [posttranslational modification] 399739001333 intermolecular recognition site; other site 399739001334 dimerization interface [polypeptide binding]; other site 399739001335 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 399739001336 CheB methylesterase; Region: CheB_methylest; pfam01339 399739001337 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 399739001338 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 399739001339 amino acid carrier protein; Region: agcS; TIGR00835 399739001340 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 399739001341 RNA methyltransferase, RsmE family; Region: TIGR00046 399739001342 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 399739001343 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 399739001344 inhibitor-cofactor binding pocket; inhibition site 399739001345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739001346 catalytic residue [active] 399739001347 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399739001348 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399739001349 tetrameric interface [polypeptide binding]; other site 399739001350 NAD binding site [chemical binding]; other site 399739001351 catalytic residues [active] 399739001352 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 399739001353 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 399739001354 putative active site [active] 399739001355 metal binding site [ion binding]; metal-binding site 399739001356 fructuronate transporter; Provisional; Region: PRK10034; cl15264 399739001357 Citrate transporter; Region: CitMHS; pfam03600 399739001358 Transcriptional regulator [Transcription]; Region: IclR; COG1414 399739001359 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 399739001360 putative DNA binding site [nucleotide binding]; other site 399739001361 putative Zn2+ binding site [ion binding]; other site 399739001362 Bacterial transcriptional regulator; Region: IclR; pfam01614 399739001363 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 399739001364 hypothetical protein; Provisional; Region: PRK03757 399739001365 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 399739001366 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 399739001367 ATP binding site [chemical binding]; other site 399739001368 Mg++ binding site [ion binding]; other site 399739001369 motif III; other site 399739001370 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 399739001371 nucleotide binding region [chemical binding]; other site 399739001372 ATP-binding site [chemical binding]; other site 399739001373 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739001374 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 399739001375 substrate binding pocket [chemical binding]; other site 399739001376 membrane-bound complex binding site; other site 399739001377 hinge residues; other site 399739001378 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 399739001379 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 399739001380 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 399739001381 recombinase A; Provisional; Region: recA; PRK09354 399739001382 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 399739001383 hexamer interface [polypeptide binding]; other site 399739001384 Walker A motif; other site 399739001385 ATP binding site [chemical binding]; other site 399739001386 Walker B motif; other site 399739001387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 399739001388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739001389 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739001390 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 399739001391 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739001392 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 399739001393 DNA binding residues [nucleotide binding] 399739001394 dimerization interface [polypeptide binding]; other site 399739001395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 399739001396 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739001397 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739001398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739001399 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739001400 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739001401 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739001402 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739001403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739001404 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739001405 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739001406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739001407 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739001408 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739001409 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739001410 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739001411 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739001412 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 399739001413 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 399739001414 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 399739001415 dimer interface [polypeptide binding]; other site 399739001416 acyl-activating enzyme (AAE) consensus motif; other site 399739001417 putative active site [active] 399739001418 AMP binding site [chemical binding]; other site 399739001419 putative CoA binding site [chemical binding]; other site 399739001420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739001421 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739001422 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399739001423 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 399739001424 NAD(P) binding site [chemical binding]; other site 399739001425 catalytic residues [active] 399739001426 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 399739001427 Rubredoxin; Region: Rubredoxin; pfam00301 399739001428 iron binding site [ion binding]; other site 399739001429 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 399739001430 Rubredoxin; Region: Rubredoxin; pfam00301 399739001431 iron binding site [ion binding]; other site 399739001432 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 399739001433 Rubredoxin; Region: Rubredoxin; pfam00301 399739001434 iron binding site [ion binding]; other site 399739001435 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 399739001436 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399739001437 Di-iron ligands [ion binding]; other site 399739001438 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 399739001439 FAD binding site [chemical binding]; other site 399739001440 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 399739001441 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 399739001442 homotetramer interface [polypeptide binding]; other site 399739001443 ligand binding site [chemical binding]; other site 399739001444 catalytic site [active] 399739001445 NAD binding site [chemical binding]; other site 399739001446 Predicted membrane protein [Function unknown]; Region: COG3686 399739001447 Cytochrome C' Region: Cytochrom_C_2; pfam01322 399739001448 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 399739001449 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 399739001450 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 399739001451 nucleotide binding pocket [chemical binding]; other site 399739001452 K-X-D-G motif; other site 399739001453 catalytic site [active] 399739001454 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 399739001455 S-adenosylmethionine synthetase; Validated; Region: PRK05250 399739001456 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 399739001457 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 399739001458 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 399739001459 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 399739001460 dimerization interface [polypeptide binding]; other site 399739001461 putative DNA binding site [nucleotide binding]; other site 399739001462 putative Zn2+ binding site [ion binding]; other site 399739001463 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399739001464 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 399739001465 S-adenosylmethionine binding site [chemical binding]; other site 399739001466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739001467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739001468 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 399739001469 putative dimerization interface [polypeptide binding]; other site 399739001470 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 399739001471 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 399739001472 gating phenylalanine in ion channel; other site 399739001473 transketolase; Reviewed; Region: PRK12753 399739001474 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 399739001475 TPP-binding site [chemical binding]; other site 399739001476 dimer interface [polypeptide binding]; other site 399739001477 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 399739001478 PYR/PP interface [polypeptide binding]; other site 399739001479 dimer interface [polypeptide binding]; other site 399739001480 TPP binding site [chemical binding]; other site 399739001481 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399739001482 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 399739001483 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399739001484 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399739001485 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 399739001486 Phosphoglycerate kinase; Region: PGK; pfam00162 399739001487 substrate binding site [chemical binding]; other site 399739001488 hinge regions; other site 399739001489 ADP binding site [chemical binding]; other site 399739001490 catalytic site [active] 399739001491 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 399739001492 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 399739001493 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 399739001494 intersubunit interface [polypeptide binding]; other site 399739001495 active site 399739001496 zinc binding site [ion binding]; other site 399739001497 Na+ binding site [ion binding]; other site 399739001498 Alginate lyase; Region: Alginate_lyase2; pfam08787 399739001499 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 399739001500 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 399739001501 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 399739001502 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 399739001503 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739001504 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399739001505 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739001506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001507 metal binding site [ion binding]; metal-binding site 399739001508 active site 399739001509 I-site; other site 399739001510 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 399739001511 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 399739001512 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 399739001513 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 399739001514 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 399739001515 active site residues [active] 399739001516 dimer interface [polypeptide binding]; other site 399739001517 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 399739001518 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399739001519 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 399739001520 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 399739001521 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 399739001522 hexamer interface [polypeptide binding]; other site 399739001523 ligand binding site [chemical binding]; other site 399739001524 putative active site [active] 399739001525 NAD(P) binding site [chemical binding]; other site 399739001526 Protocatechuate 3,4-dioxygenase (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 beta-subunit and an Fe3+ ion...; Region: 3,4-PCD; cd03459 399739001527 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739001528 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 399739001529 TrkA-C domain; Region: TrkA_C; pfam02080 399739001530 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739001531 TrkA-C domain; Region: TrkA_C; pfam02080 399739001532 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 399739001533 HI0933-like protein; Region: HI0933_like; pfam03486 399739001534 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739001535 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739001536 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 399739001537 substrate binding pocket [chemical binding]; other site 399739001538 membrane-bound complex binding site; other site 399739001539 hinge residues; other site 399739001540 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 399739001541 active site 399739001542 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 399739001543 phosphorylation site [posttranslational modification] 399739001544 intermolecular recognition site; other site 399739001545 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 399739001546 active site 399739001547 phosphorylation site [posttranslational modification] 399739001548 intermolecular recognition site; other site 399739001549 dimerization interface [polypeptide binding]; other site 399739001550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001551 metal binding site [ion binding]; metal-binding site 399739001552 active site 399739001553 I-site; other site 399739001554 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 399739001555 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 399739001556 ATP binding site [chemical binding]; other site 399739001557 Mg++ binding site [ion binding]; other site 399739001558 motif III; other site 399739001559 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 399739001560 nucleotide binding region [chemical binding]; other site 399739001561 ATP-binding site [chemical binding]; other site 399739001562 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 399739001563 putative RNA binding site [nucleotide binding]; other site 399739001564 putative transporter; Provisional; Region: PRK10504 399739001565 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 399739001566 putative substrate translocation pore; other site 399739001567 choline dehydrogenase; Validated; Region: PRK02106 399739001568 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399739001569 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 399739001570 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 399739001571 tetrameric interface [polypeptide binding]; other site 399739001572 NAD binding site [chemical binding]; other site 399739001573 catalytic residues [active] 399739001574 transcriptional regulator BetI; Validated; Region: PRK00767 399739001575 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739001576 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 399739001577 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 399739001578 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 399739001579 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 399739001580 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 399739001581 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 399739001582 dimer interface [polypeptide binding]; other site 399739001583 conserved gate region; other site 399739001584 putative PBP binding loops; other site 399739001585 ABC-ATPase subunit interface; other site 399739001586 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 399739001587 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 399739001588 Walker A/P-loop; other site 399739001589 ATP binding site [chemical binding]; other site 399739001590 Q-loop/lid; other site 399739001591 ABC transporter signature motif; other site 399739001592 Walker B; other site 399739001593 D-loop; other site 399739001594 H-loop/switch region; other site 399739001595 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 399739001596 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 399739001597 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 399739001598 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739001599 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 399739001600 conserved cys residue [active] 399739001601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739001602 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 399739001603 Ligand Binding Site [chemical binding]; other site 399739001604 Electron transfer flavoprotein domain; Region: ETF; pfam01012 399739001605 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 399739001606 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; cd01985 399739001607 Ligand binding site [chemical binding]; other site 399739001608 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 399739001609 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 399739001610 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 399739001611 Cysteine-rich domain; Region: CCG; pfam02754 399739001612 Cysteine-rich domain; Region: CCG; pfam02754 399739001613 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 399739001614 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 399739001615 putative active site [active] 399739001616 putative FMN binding site [chemical binding]; other site 399739001617 putative substrate binding site [chemical binding]; other site 399739001618 putative catalytic residue [active] 399739001619 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739001620 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 399739001621 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 399739001622 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 399739001623 active site 399739001624 dimer interface [polypeptide binding]; other site 399739001625 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739001626 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 399739001627 conserved cys residue [active] 399739001628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739001629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739001630 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 399739001631 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 399739001632 Uncharacterized conserved protein [Function unknown]; Region: COG3246 399739001633 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 399739001634 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399739001635 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399739001636 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 399739001637 active site 399739001638 Protein of unknown function (DUF971); Region: DUF971; cl01414 399739001639 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 399739001640 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; cd00250 399739001641 substrate binding pocket [chemical binding]; other site 399739001642 active site 399739001643 iron coordination sites [ion binding]; other site 399739001644 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 399739001645 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 399739001646 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 399739001647 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 399739001648 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 399739001649 PAS domain; Region: PAS_9; pfam13426 399739001650 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739001651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001652 metal binding site [ion binding]; metal-binding site 399739001653 active site 399739001654 I-site; other site 399739001655 fructose-1,6-bisphosphatase family protein; Region: PLN02628 399739001656 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 399739001657 AMP binding site [chemical binding]; other site 399739001658 metal binding site [ion binding]; metal-binding site 399739001659 active site 399739001660 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 399739001661 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 399739001662 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 399739001663 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 399739001664 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 399739001665 TAP-like protein; Region: Abhydrolase_4; pfam08386 399739001666 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 399739001667 putative active site [active] 399739001668 dimerization interface [polypeptide binding]; other site 399739001669 putative tRNAtyr binding site [nucleotide binding]; other site 399739001670 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 399739001671 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 399739001672 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 399739001673 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 399739001674 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 399739001675 metal binding site [ion binding]; metal-binding site 399739001676 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 399739001677 ABC1 family; Region: ABC1; cl17513 399739001678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 399739001679 SCP-2 sterol transfer family; Region: SCP2; pfam02036 399739001680 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 399739001681 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 399739001682 S-adenosylmethionine binding site [chemical binding]; other site 399739001683 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 399739001684 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 399739001685 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 399739001686 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739001687 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739001688 Bacterial transcriptional repressor; Region: TetR; pfam13972 399739001689 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 399739001690 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 399739001691 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 399739001692 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 399739001693 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 399739001694 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 399739001695 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 399739001696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 399739001697 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 399739001698 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 399739001699 Walker A motif; other site 399739001700 ATP binding site [chemical binding]; other site 399739001701 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 399739001702 Walker B motif; other site 399739001703 arginine finger; other site 399739001704 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 399739001705 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 399739001706 active site 399739001707 HslU subunit interaction site [polypeptide binding]; other site 399739001708 Sporulation related domain; Region: SPOR; pfam05036 399739001709 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 399739001710 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 399739001711 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 399739001712 active site 399739001713 HIGH motif; other site 399739001714 KMSK motif region; other site 399739001715 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 399739001716 tRNA binding surface [nucleotide binding]; other site 399739001717 anticodon binding site; other site 399739001718 primosome assembly protein PriA; Validated; Region: PRK05580 399739001719 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 399739001720 ATP binding site [chemical binding]; other site 399739001721 putative Mg++ binding site [ion binding]; other site 399739001722 helicase superfamily c-terminal domain; Region: HELICc; smart00490 399739001723 ATP-binding site [chemical binding]; other site 399739001724 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 399739001725 Staphylococcal nuclease homologues; Region: SNc; smart00318 399739001726 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 399739001727 Catalytic site; other site 399739001728 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 399739001729 Peptidase family M48; Region: Peptidase_M48; pfam01435 399739001730 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 399739001731 Malic enzyme, N-terminal domain; Region: malic; pfam00390 399739001732 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 399739001733 putative NAD(P) binding site [chemical binding]; other site 399739001734 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 399739001735 Transglycosylase; Region: Transgly; pfam00912 399739001736 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 399739001737 Competence protein A; Region: Competence_A; pfam11104 399739001738 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 399739001739 nucleotide binding site [chemical binding]; other site 399739001740 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 399739001741 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 399739001742 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 399739001743 Pilus assembly protein, PilP; Region: PilP; pfam04351 399739001744 AMIN domain; Region: AMIN; pfam11741 399739001745 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 399739001746 Secretin and TonB N terminus short domain; Region: STN; smart00965 399739001747 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739001748 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399739001749 shikimate kinase; Reviewed; Region: aroK; PRK00131 399739001750 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 399739001751 ADP binding site [chemical binding]; other site 399739001752 magnesium binding site [ion binding]; other site 399739001753 putative shikimate binding site; other site 399739001754 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 399739001755 active site 399739001756 dimer interface [polypeptide binding]; other site 399739001757 metal binding site [ion binding]; metal-binding site 399739001758 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 399739001759 cell division protein DamX; Validated; Region: PRK10905 399739001760 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 399739001761 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 399739001762 active site 399739001763 dimer interface [polypeptide binding]; other site 399739001764 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 399739001765 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 399739001766 active site 399739001767 FMN binding site [chemical binding]; other site 399739001768 substrate binding site [chemical binding]; other site 399739001769 3Fe-4S cluster binding site [ion binding]; other site 399739001770 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 399739001771 domain interface; other site 399739001772 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 399739001773 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739001774 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739001775 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 399739001776 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 399739001777 substrate binding site [chemical binding]; other site 399739001778 active site 399739001779 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399739001780 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 399739001781 P-loop; other site 399739001782 Magnesium ion binding site [ion binding]; other site 399739001783 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 399739001784 Magnesium ion binding site [ion binding]; other site 399739001785 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 399739001786 Ligand Binding Site [chemical binding]; other site 399739001787 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 399739001788 Ligand Binding Site [chemical binding]; other site 399739001789 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 399739001790 CoenzymeA binding site [chemical binding]; other site 399739001791 subunit interaction site [polypeptide binding]; other site 399739001792 PHB binding site; other site 399739001793 thioredoxin 2; Provisional; Region: PRK10996 399739001794 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 399739001795 catalytic residues [active] 399739001796 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 399739001797 transmembrane helices; other site 399739001798 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739001799 TrkA-C domain; Region: TrkA_C; pfam02080 399739001800 TrkA-C domain; Region: TrkA_C; pfam02080 399739001801 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 399739001802 Uncharacterized conserved protein [Function unknown]; Region: COG0397 399739001803 hypothetical protein; Validated; Region: PRK00029 399739001804 hypothetical protein; Provisional; Region: PRK11281 399739001805 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 399739001806 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739001807 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 399739001808 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 399739001809 TrkA-C domain; Region: TrkA_C; pfam02080 399739001810 Transporter associated domain; Region: CorC_HlyC; smart01091 399739001811 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739001812 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739001813 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739001814 active site 399739001815 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739001816 Nitronate monooxygenase; Region: NMO; pfam03060 399739001817 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 399739001818 FMN binding site [chemical binding]; other site 399739001819 substrate binding site [chemical binding]; other site 399739001820 putative catalytic residue [active] 399739001821 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 399739001822 HsdM N-terminal domain; Region: HsdM_N; pfam12161 399739001823 Methyltransferase domain; Region: Methyltransf_26; pfam13659 399739001824 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 399739001825 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 399739001826 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 399739001827 ADP-ribose binding site [chemical binding]; other site 399739001828 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 399739001829 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 399739001830 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 399739001831 ATP binding site [chemical binding]; other site 399739001832 putative Mg++ binding site [ion binding]; other site 399739001833 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 399739001834 Protein of unknown function DUF45; Region: DUF45; pfam01863 399739001835 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 399739001836 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 399739001837 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739001838 Zn2+ binding site [ion binding]; other site 399739001839 Mg2+ binding site [ion binding]; other site 399739001840 methionine sulfoxide reductase A; Provisional; Region: PRK00058 399739001841 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399739001842 GAF domain; Region: GAF; pfam01590 399739001843 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 399739001844 PAS domain; Region: PAS_9; pfam13426 399739001845 putative active site [active] 399739001846 heme pocket [chemical binding]; other site 399739001847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739001848 metal binding site [ion binding]; metal-binding site 399739001849 active site 399739001850 I-site; other site 399739001851 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 399739001852 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 399739001853 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 399739001854 E3 interaction surface; other site 399739001855 lipoyl attachment site [posttranslational modification]; other site 399739001856 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 399739001857 E3 interaction surface; other site 399739001858 lipoyl attachment site [posttranslational modification]; other site 399739001859 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 399739001860 E3 interaction surface; other site 399739001861 lipoyl attachment site [posttranslational modification]; other site 399739001862 e3 binding domain; Region: E3_binding; pfam02817 399739001863 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399739001864 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 399739001865 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 399739001866 dimer interface [polypeptide binding]; other site 399739001867 TPP-binding site [chemical binding]; other site 399739001868 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 399739001869 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 399739001870 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399739001871 metal binding triad; other site 399739001872 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399739001873 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399739001874 metal binding triad; other site 399739001875 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399739001876 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 399739001877 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 399739001878 homodimer interface [polypeptide binding]; other site 399739001879 substrate-cofactor binding pocket; other site 399739001880 catalytic residue [active] 399739001881 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 399739001882 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 399739001883 putative active site [active] 399739001884 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 399739001885 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 399739001886 putative active site [active] 399739001887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739001888 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 399739001889 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 399739001890 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 399739001891 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 399739001892 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 399739001893 active site 399739001894 ATP binding site [chemical binding]; other site 399739001895 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 399739001896 active site 399739001897 ATP binding site [chemical binding]; other site 399739001898 substrate binding site [chemical binding]; other site 399739001899 activation loop (A-loop); other site 399739001900 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 399739001901 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 399739001902 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 399739001903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739001904 putative ADP-binding pocket [chemical binding]; other site 399739001905 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 399739001906 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739001907 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 399739001908 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 399739001909 active site 399739001910 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 399739001911 trimer interface [polypeptide binding]; other site 399739001912 active site 399739001913 substrate binding site [chemical binding]; other site 399739001914 CoA binding site [chemical binding]; other site 399739001915 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 399739001916 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739001917 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 399739001918 Walker A/P-loop; other site 399739001919 ATP binding site [chemical binding]; other site 399739001920 Q-loop/lid; other site 399739001921 ABC transporter signature motif; other site 399739001922 Walker B; other site 399739001923 D-loop; other site 399739001924 H-loop/switch region; other site 399739001925 Mig-14; Region: Mig-14; pfam07395 399739001926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 399739001927 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 399739001928 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 399739001929 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 399739001930 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 399739001931 putative ribose interaction site [chemical binding]; other site 399739001932 putative ADP binding site [chemical binding]; other site 399739001933 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 399739001934 active site 399739001935 nucleotide binding site [chemical binding]; other site 399739001936 HIGH motif; other site 399739001937 KMSKS motif; other site 399739001938 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739001939 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739001940 active site 399739001941 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739001942 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739001943 active site 399739001944 Protein of unknown function (DUF330); Region: DUF330; pfam03886 399739001945 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 399739001946 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 399739001947 CAP-like domain; other site 399739001948 active site 399739001949 primary dimer interface [polypeptide binding]; other site 399739001950 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 399739001951 catalytic motif [active] 399739001952 Catalytic residue [active] 399739001953 SdiA-regulated; Region: SdiA-regulated; cd09971 399739001954 putative active site [active] 399739001955 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 399739001956 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 399739001957 ATP binding site [chemical binding]; other site 399739001958 Mg2+ binding site [ion binding]; other site 399739001959 G-X-G motif; other site 399739001960 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 399739001961 anchoring element; other site 399739001962 dimer interface [polypeptide binding]; other site 399739001963 ATP binding site [chemical binding]; other site 399739001964 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 399739001965 active site 399739001966 metal binding site [ion binding]; metal-binding site 399739001967 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 399739001968 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 399739001969 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739001970 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 399739001971 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399739001972 hexamer interface [polypeptide binding]; other site 399739001973 active site 399739001974 metal binding site [ion binding]; metal-binding site 399739001975 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 399739001976 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 399739001977 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 399739001978 dimer interface [polypeptide binding]; other site 399739001979 ADP-ribose binding site [chemical binding]; other site 399739001980 active site 399739001981 nudix motif; other site 399739001982 metal binding site [ion binding]; metal-binding site 399739001983 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 399739001984 ThiC-associated domain; Region: ThiC-associated; pfam13667 399739001985 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 399739001986 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 399739001987 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 399739001988 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 399739001989 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 399739001990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739001991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739001992 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 399739001993 dimerization interface [polypeptide binding]; other site 399739001994 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 399739001995 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 399739001996 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 399739001997 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739001998 active site 399739001999 catalytic tetrad [active] 399739002000 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 399739002001 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 399739002002 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 399739002003 phosphoserine phosphatase SerB; Region: serB; TIGR00338 399739002004 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 399739002005 motif II; other site 399739002006 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739002007 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 399739002008 active site 399739002009 phosphorylation site [posttranslational modification] 399739002010 intermolecular recognition site; other site 399739002011 dimerization interface [polypeptide binding]; other site 399739002012 PAS domain S-box; Region: sensory_box; TIGR00229 399739002013 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 399739002014 putative active site [active] 399739002015 heme pocket [chemical binding]; other site 399739002016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739002017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739002018 metal binding site [ion binding]; metal-binding site 399739002019 active site 399739002020 I-site; other site 399739002021 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 399739002022 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 399739002023 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 399739002024 active site residue [active] 399739002025 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 399739002026 active site residue [active] 399739002027 HDOD domain; Region: HDOD; pfam08668 399739002028 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 399739002029 flagellar motor protein MotA; Validated; Region: PRK09110 399739002030 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 399739002031 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 399739002032 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739002033 ligand binding site [chemical binding]; other site 399739002034 GTPase RsgA; Reviewed; Region: PRK12288 399739002035 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 399739002036 RNA binding site [nucleotide binding]; other site 399739002037 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 399739002038 GTPase/Zn-binding domain interface [polypeptide binding]; other site 399739002039 GTP/Mg2+ binding site [chemical binding]; other site 399739002040 G4 box; other site 399739002041 G5 box; other site 399739002042 G1 box; other site 399739002043 Switch I region; other site 399739002044 G2 box; other site 399739002045 G3 box; other site 399739002046 Switch II region; other site 399739002047 Methyltransferase domain; Region: Methyltransf_18; pfam12847 399739002048 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 399739002049 catalytic site [active] 399739002050 putative active site [active] 399739002051 putative substrate binding site [chemical binding]; other site 399739002052 dimer interface [polypeptide binding]; other site 399739002053 epoxyqueuosine reductase; Region: TIGR00276 399739002054 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 399739002055 Uncharacterized conserved protein [Function unknown]; Region: COG0062 399739002056 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 399739002057 putative substrate binding site [chemical binding]; other site 399739002058 putative ATP binding site [chemical binding]; other site 399739002059 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 399739002060 AMIN domain; Region: AMIN; pfam11741 399739002061 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 399739002062 active site 399739002063 metal binding site [ion binding]; metal-binding site 399739002064 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 399739002065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739002066 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 399739002067 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 399739002068 ATP binding site [chemical binding]; other site 399739002069 Mg2+ binding site [ion binding]; other site 399739002070 G-X-G motif; other site 399739002071 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 399739002072 ATP binding site [chemical binding]; other site 399739002073 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 399739002074 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 399739002075 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 399739002076 bacterial Hfq-like; Region: Hfq; cd01716 399739002077 hexamer interface [polypeptide binding]; other site 399739002078 Sm1 motif; other site 399739002079 RNA binding site [nucleotide binding]; other site 399739002080 Sm2 motif; other site 399739002081 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 399739002082 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 399739002083 HflX GTPase family; Region: HflX; cd01878 399739002084 G1 box; other site 399739002085 GTP/Mg2+ binding site [chemical binding]; other site 399739002086 Switch I region; other site 399739002087 G2 box; other site 399739002088 G3 box; other site 399739002089 Switch II region; other site 399739002090 G4 box; other site 399739002091 G5 box; other site 399739002092 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 399739002093 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 399739002094 HflK protein; Region: hflK; TIGR01933 399739002095 FtsH protease regulator HflC; Provisional; Region: PRK11029 399739002096 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 399739002097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 399739002098 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 399739002099 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 399739002100 dimer interface [polypeptide binding]; other site 399739002101 motif 1; other site 399739002102 active site 399739002103 motif 2; other site 399739002104 motif 3; other site 399739002105 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 399739002106 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 399739002107 GDP-binding site [chemical binding]; other site 399739002108 ACT binding site; other site 399739002109 IMP binding site; other site 399739002110 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739002111 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 399739002112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739002113 dimer interface [polypeptide binding]; other site 399739002114 putative CheW interface [polypeptide binding]; other site 399739002115 ribonuclease R; Region: RNase_R; TIGR02063 399739002116 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 399739002117 RNB domain; Region: RNB; pfam00773 399739002118 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 399739002119 RNA binding site [nucleotide binding]; other site 399739002120 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 399739002121 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 399739002122 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 399739002123 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 399739002124 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 399739002125 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 399739002126 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 399739002127 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 399739002128 replicative DNA helicase; Provisional; Region: PRK05748 399739002129 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 399739002130 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 399739002131 Walker A motif; other site 399739002132 ATP binding site [chemical binding]; other site 399739002133 Walker B motif; other site 399739002134 DNA binding loops [nucleotide binding] 399739002135 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 399739002136 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 399739002137 active site 399739002138 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739002139 substrate binding site [chemical binding]; other site 399739002140 catalytic residues [active] 399739002141 dimer interface [polypeptide binding]; other site 399739002142 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739002143 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399739002144 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739002145 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739002146 metal binding site [ion binding]; metal-binding site 399739002147 active site 399739002148 I-site; other site 399739002149 hypothetical protein; Provisional; Region: PRK01254 399739002150 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 399739002151 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 399739002152 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 399739002153 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 399739002154 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 399739002155 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 399739002156 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399739002157 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399739002158 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 399739002159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 399739002160 Uncharacterized conserved protein [Function unknown]; Region: COG2308 399739002161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 399739002162 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 399739002163 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399739002164 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 399739002165 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399739002166 azurin; Region: azurin; TIGR02695 399739002167 Protein of unknown function (DUF808); Region: DUF808; pfam05661 399739002168 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 399739002169 LysE type translocator; Region: LysE; pfam01810 399739002170 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 399739002171 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 399739002172 putative active site [active] 399739002173 catalytic site [active] 399739002174 putative metal binding site [ion binding]; other site 399739002175 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 399739002176 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 399739002177 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 399739002178 UreF; Region: UreF; pfam01730 399739002179 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 399739002180 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 399739002181 dimer interface [polypeptide binding]; other site 399739002182 catalytic residues [active] 399739002183 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 399739002184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739002185 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 399739002186 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399739002187 FAD binding pocket [chemical binding]; other site 399739002188 FAD binding motif [chemical binding]; other site 399739002189 phosphate binding motif [ion binding]; other site 399739002190 beta-alpha-beta structure motif; other site 399739002191 NAD binding pocket [chemical binding]; other site 399739002192 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 399739002193 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399739002194 catalytic loop [active] 399739002195 iron binding site [ion binding]; other site 399739002196 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 399739002197 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 399739002198 putative di-iron ligands [ion binding]; other site 399739002199 Predicted permeases [General function prediction only]; Region: COG0679 399739002200 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739002201 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399739002202 catalytic site [active] 399739002203 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 399739002204 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 399739002205 DctM-like transporters; Region: DctM; pfam06808 399739002206 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 399739002207 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 399739002208 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739002209 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739002210 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399739002211 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 399739002212 NAD(P) binding site [chemical binding]; other site 399739002213 catalytic residues [active] 399739002214 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 399739002215 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 399739002216 putative active site [active] 399739002217 metal binding site [ion binding]; metal-binding site 399739002218 putative chaperone; Provisional; Region: PRK11678 399739002219 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 399739002220 nucleotide binding site [chemical binding]; other site 399739002221 putative NEF/HSP70 interaction site [polypeptide binding]; other site 399739002222 SBD interface [polypeptide binding]; other site 399739002223 Predicted integral membrane protein [Function unknown]; Region: COG0392 399739002224 Predicted membrane protein [Function unknown]; Region: COG1238 399739002225 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 399739002226 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 399739002227 putative ligand binding site [chemical binding]; other site 399739002228 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739002229 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 399739002230 substrate binding pocket [chemical binding]; other site 399739002231 membrane-bound complex binding site; other site 399739002232 hinge residues; other site 399739002233 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739002234 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739002235 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399739002236 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 399739002237 tetramer interface [polypeptide binding]; other site 399739002238 active site 399739002239 Mg2+/Mn2+ binding site [ion binding]; other site 399739002240 hypothetical protein; Provisional; Region: PRK11019 399739002241 Hemerythrin-like domain; Region: Hr-like; cd12108 399739002242 urease subunit alpha; Reviewed; Region: ureC; PRK13207 399739002243 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 399739002244 subunit interactions [polypeptide binding]; other site 399739002245 active site 399739002246 flap region; other site 399739002247 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 399739002248 gamma-beta subunit interface [polypeptide binding]; other site 399739002249 alpha-beta subunit interface [polypeptide binding]; other site 399739002250 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 399739002251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739002252 Coenzyme A binding pocket [chemical binding]; other site 399739002253 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 399739002254 alpha-gamma subunit interface [polypeptide binding]; other site 399739002255 beta-gamma subunit interface [polypeptide binding]; other site 399739002256 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 399739002257 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 399739002258 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 399739002259 Walker A/P-loop; other site 399739002260 ATP binding site [chemical binding]; other site 399739002261 Q-loop/lid; other site 399739002262 ABC transporter signature motif; other site 399739002263 Walker B; other site 399739002264 D-loop; other site 399739002265 H-loop/switch region; other site 399739002266 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 399739002267 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 399739002268 Walker A/P-loop; other site 399739002269 ATP binding site [chemical binding]; other site 399739002270 Q-loop/lid; other site 399739002271 ABC transporter signature motif; other site 399739002272 Walker B; other site 399739002273 D-loop; other site 399739002274 H-loop/switch region; other site 399739002275 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 399739002276 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 399739002277 TM-ABC transporter signature motif; other site 399739002278 HEAT repeats; Region: HEAT_2; pfam13646 399739002279 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 399739002280 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 399739002281 TM-ABC transporter signature motif; other site 399739002282 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 399739002283 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 399739002284 putative ligand binding site [chemical binding]; other site 399739002285 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739002286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739002287 DNA-binding site [nucleotide binding]; DNA binding site 399739002288 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399739002289 urea carboxylase; Region: urea_carbox; TIGR02712 399739002290 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739002291 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739002292 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399739002293 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 399739002294 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 399739002295 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 399739002296 carboxyltransferase (CT) interaction site; other site 399739002297 biotinylation site [posttranslational modification]; other site 399739002298 allophanate hydrolase; Provisional; Region: PRK08186 399739002299 Amidase; Region: Amidase; pfam01425 399739002300 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 399739002301 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739002302 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 399739002303 dimer interface [polypeptide binding]; other site 399739002304 phosphorylation site [posttranslational modification] 399739002305 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 399739002306 ATP binding site [chemical binding]; other site 399739002307 Mg2+ binding site [ion binding]; other site 399739002308 G-X-G motif; other site 399739002309 Response regulator receiver domain; Region: Response_reg; pfam00072 399739002310 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 399739002311 active site 399739002312 phosphorylation site [posttranslational modification] 399739002313 intermolecular recognition site; other site 399739002314 dimerization interface [polypeptide binding]; other site 399739002315 Response regulator receiver domain; Region: Response_reg; pfam00072 399739002316 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 399739002317 active site 399739002318 phosphorylation site [posttranslational modification] 399739002319 intermolecular recognition site; other site 399739002320 dimerization interface [polypeptide binding]; other site 399739002321 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 399739002322 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 399739002323 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 399739002324 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 399739002325 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 399739002326 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 399739002327 purine monophosphate binding site [chemical binding]; other site 399739002328 dimer interface [polypeptide binding]; other site 399739002329 putative catalytic residues [active] 399739002330 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 399739002331 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 399739002332 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 399739002333 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 399739002334 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 399739002335 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 399739002336 FMN binding site [chemical binding]; other site 399739002337 active site 399739002338 catalytic residues [active] 399739002339 substrate binding site [chemical binding]; other site 399739002340 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 399739002341 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 399739002342 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 399739002343 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 399739002344 S-adenosylmethionine binding site [chemical binding]; other site 399739002345 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 399739002346 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739002347 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399739002348 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399739002349 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 399739002350 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 399739002351 carboxyltransferase (CT) interaction site; other site 399739002352 biotinylation site [posttranslational modification]; other site 399739002353 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 399739002354 Dehydroquinase class II; Region: DHquinase_II; pfam01220 399739002355 active site 399739002356 trimer interface [polypeptide binding]; other site 399739002357 dimer interface [polypeptide binding]; other site 399739002358 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 399739002359 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 399739002360 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399739002361 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 399739002362 DsbD alpha interface [polypeptide binding]; other site 399739002363 catalytic residues [active] 399739002364 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739002365 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739002366 dimer interface [polypeptide binding]; other site 399739002367 putative CheW interface [polypeptide binding]; other site 399739002368 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 399739002369 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 399739002370 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739002371 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739002372 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 399739002373 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739002374 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 399739002375 Walker A/P-loop; other site 399739002376 ATP binding site [chemical binding]; other site 399739002377 Q-loop/lid; other site 399739002378 ABC transporter signature motif; other site 399739002379 Walker B; other site 399739002380 D-loop; other site 399739002381 H-loop/switch region; other site 399739002382 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 399739002383 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 399739002384 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 399739002385 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 399739002386 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 399739002387 active site 399739002388 phosphorylation site [posttranslational modification] 399739002389 intermolecular recognition site; other site 399739002390 dimerization interface [polypeptide binding]; other site 399739002391 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 399739002392 active site 399739002393 phosphorylation site [posttranslational modification] 399739002394 intermolecular recognition site; other site 399739002395 dimerization interface [polypeptide binding]; other site 399739002396 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739002397 metal binding site [ion binding]; metal-binding site 399739002398 active site 399739002399 I-site; other site 399739002400 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 399739002401 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_38; cd04697 399739002402 nudix motif; other site 399739002403 translation initiation factor Sui1; Validated; Region: PRK06824 399739002404 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 399739002405 putative rRNA binding site [nucleotide binding]; other site 399739002406 arginine decarboxylase; Provisional; Region: PRK05354 399739002407 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 399739002408 dimer interface [polypeptide binding]; other site 399739002409 active site 399739002410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739002411 catalytic residues [active] 399739002412 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 399739002413 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 399739002414 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 399739002415 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 399739002416 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 399739002417 MG2 domain; Region: A2M_N; pfam01835 399739002418 Alpha-2-macroglobulin family; Region: A2M; pfam00207 399739002419 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 399739002420 surface patch; other site 399739002421 thioester region; other site 399739002422 specificity defining residues; other site 399739002423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 399739002424 penicillin-binding protein 1C; Provisional; Region: PRK11240 399739002425 Transglycosylase; Region: Transgly; pfam00912 399739002426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399739002427 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 399739002428 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739002429 Cache domain; Region: Cache_1; pfam02743 399739002430 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 399739002431 dimerization interface [polypeptide binding]; other site 399739002432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739002433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739002434 dimer interface [polypeptide binding]; other site 399739002435 putative CheW interface [polypeptide binding]; other site 399739002436 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739002437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739002438 metal binding site [ion binding]; metal-binding site 399739002439 active site 399739002440 I-site; other site 399739002441 Protein of unknown function, DUF606; Region: DUF606; pfam04657 399739002442 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739002443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739002444 Coenzyme A binding pocket [chemical binding]; other site 399739002445 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399739002446 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399739002447 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 399739002448 S-adenosylmethionine binding site [chemical binding]; other site 399739002449 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 399739002450 homodimer interface [polypeptide binding]; other site 399739002451 chemical substrate binding site [chemical binding]; other site 399739002452 oligomer interface [polypeptide binding]; other site 399739002453 metal binding site [ion binding]; metal-binding site 399739002454 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 399739002455 active site 2 [active] 399739002456 active site 1 [active] 399739002457 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739002458 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739002459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739002460 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 399739002461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739002462 NAD(P) binding site [chemical binding]; other site 399739002463 active site 399739002464 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 399739002465 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 399739002466 dimer interface [polypeptide binding]; other site 399739002467 active site 399739002468 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 399739002469 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 399739002470 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 399739002471 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 399739002472 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 399739002473 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 399739002474 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 399739002475 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 399739002476 S-adenosylmethionine binding site [chemical binding]; other site 399739002477 ferredoxin-NADP reductase; Provisional; Region: PRK10926 399739002478 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 399739002479 FAD binding pocket [chemical binding]; other site 399739002480 FAD binding motif [chemical binding]; other site 399739002481 phosphate binding motif [ion binding]; other site 399739002482 beta-alpha-beta structure motif; other site 399739002483 NAD binding pocket [chemical binding]; other site 399739002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 399739002485 Protein of unknown function (DUF465); Region: DUF465; cl01070 399739002486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739002487 Coenzyme A binding pocket [chemical binding]; other site 399739002488 DNA repair protein RadA; Provisional; Region: PRK11823 399739002489 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 399739002490 Walker A motif/ATP binding site; other site 399739002491 ATP binding site [chemical binding]; other site 399739002492 Walker B motif; other site 399739002493 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 399739002494 PilZ domain; Region: PilZ; pfam07238 399739002495 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 399739002496 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 399739002497 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 399739002498 dimer interface [polypeptide binding]; other site 399739002499 active site 399739002500 glycine-pyridoxal phosphate binding site [chemical binding]; other site 399739002501 folate binding site [chemical binding]; other site 399739002502 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399739002503 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 399739002504 putative active site [active] 399739002505 heme pocket [chemical binding]; other site 399739002506 PAS domain S-box; Region: sensory_box; TIGR00229 399739002507 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 399739002508 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 399739002509 PAS domain; Region: PAS_9; pfam13426 399739002510 putative active site [active] 399739002511 heme pocket [chemical binding]; other site 399739002512 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739002513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739002514 metal binding site [ion binding]; metal-binding site 399739002515 active site 399739002516 I-site; other site 399739002517 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 399739002518 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 399739002519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739002520 Walker A/P-loop; other site 399739002521 ATP binding site [chemical binding]; other site 399739002522 Q-loop/lid; other site 399739002523 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739002524 ABC transporter signature motif; other site 399739002525 Walker B; other site 399739002526 D-loop; other site 399739002527 ABC transporter; Region: ABC_tran_2; pfam12848 399739002528 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739002529 PilZ domain; Region: PilZ; pfam07238 399739002530 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 399739002531 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 399739002532 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739002533 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 399739002534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 399739002535 MOSC domain; Region: MOSC; pfam03473 399739002536 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 399739002537 Predicted membrane protein [Function unknown]; Region: COG3235 399739002538 DNA gyrase inhibitor; Reviewed; Region: PRK00418 399739002539 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 399739002540 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 399739002541 CoA-binding site [chemical binding]; other site 399739002542 ATP-binding [chemical binding]; other site 399739002543 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 399739002544 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 399739002545 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 399739002546 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 399739002547 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739002548 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739002549 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 399739002550 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399739002551 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 399739002552 Walker A motif; other site 399739002553 ATP binding site [chemical binding]; other site 399739002554 Walker B motif; other site 399739002555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739002556 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739002557 Pilin (bacterial filament); Region: Pilin; pfam00114 399739002558 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 399739002559 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 399739002560 dimerization interface [polypeptide binding]; other site 399739002561 active site 399739002562 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 399739002563 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 399739002564 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 399739002565 amidase catalytic site [active] 399739002566 Zn binding residues [ion binding]; other site 399739002567 substrate binding site [chemical binding]; other site 399739002568 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 399739002569 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 399739002570 dimerization interface [polypeptide binding]; other site 399739002571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739002572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739002573 dimer interface [polypeptide binding]; other site 399739002574 putative CheW interface [polypeptide binding]; other site 399739002575 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399739002576 active site 399739002577 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 399739002578 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 399739002579 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 399739002580 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399739002581 DNA binding site [nucleotide binding] 399739002582 domain linker motif; other site 399739002583 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 399739002584 dimerization interface [polypeptide binding]; other site 399739002585 ligand binding site [chemical binding]; other site 399739002586 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 399739002587 active site 399739002588 phosphorylation site [posttranslational modification] 399739002589 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 399739002590 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; cl00206 399739002591 regulatory protein interface [polypeptide binding]; other site 399739002592 active site 399739002593 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 399739002594 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 399739002595 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399739002596 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399739002597 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 399739002598 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 399739002599 putative substrate binding site [chemical binding]; other site 399739002600 putative ATP binding site [chemical binding]; other site 399739002601 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 399739002602 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 399739002603 active site 399739002604 P-loop; other site 399739002605 phosphorylation site [posttranslational modification] 399739002606 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 399739002607 active site 399739002608 P-loop; other site 399739002609 phosphorylation site [posttranslational modification] 399739002610 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 399739002611 NAD-dependent deacetylase; Provisional; Region: PRK00481 399739002612 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 399739002613 NAD+ binding site [chemical binding]; other site 399739002614 substrate binding site [chemical binding]; other site 399739002615 Zn binding site [ion binding]; other site 399739002616 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 399739002617 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 399739002618 Trp docking motif [polypeptide binding]; other site 399739002619 putative active site [active] 399739002620 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 399739002621 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 399739002622 G1 box; other site 399739002623 putative GEF interaction site [polypeptide binding]; other site 399739002624 GTP/Mg2+ binding site [chemical binding]; other site 399739002625 Switch I region; other site 399739002626 G2 box; other site 399739002627 G3 box; other site 399739002628 Switch II region; other site 399739002629 G4 box; other site 399739002630 G5 box; other site 399739002631 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 399739002632 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399739002633 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 399739002634 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399739002635 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 399739002636 Flavodoxin; Region: Flavodoxin_1; pfam00258 399739002637 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 399739002638 FAD binding pocket [chemical binding]; other site 399739002639 FAD binding motif [chemical binding]; other site 399739002640 catalytic residues [active] 399739002641 NAD binding pocket [chemical binding]; other site 399739002642 phosphate binding motif [ion binding]; other site 399739002643 beta-alpha-beta structure motif; other site 399739002644 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739002645 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 399739002646 active site 399739002647 phosphorylation site [posttranslational modification] 399739002648 intermolecular recognition site; other site 399739002649 dimerization interface [polypeptide binding]; other site 399739002650 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 399739002651 DNA binding site [nucleotide binding] 399739002652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739002653 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 399739002654 dimerization interface [polypeptide binding]; other site 399739002655 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 399739002656 dimer interface [polypeptide binding]; other site 399739002657 phosphorylation site [posttranslational modification] 399739002658 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 399739002659 ATP binding site [chemical binding]; other site 399739002660 Mg2+ binding site [ion binding]; other site 399739002661 G-X-G motif; other site 399739002662 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 399739002663 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 399739002664 N-terminal plug; other site 399739002665 ligand-binding site [chemical binding]; other site 399739002666 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 399739002667 intersubunit interface [polypeptide binding]; other site 399739002668 FecCD transport family; Region: FecCD; pfam01032 399739002669 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 399739002670 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399739002671 Walker A/P-loop; other site 399739002672 ATP binding site [chemical binding]; other site 399739002673 Q-loop/lid; other site 399739002674 ABC transporter signature motif; other site 399739002675 Walker B; other site 399739002676 D-loop; other site 399739002677 H-loop/switch region; other site 399739002678 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 399739002679 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 399739002680 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 399739002681 dimer interface [polypeptide binding]; other site 399739002682 active site 399739002683 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739002684 catalytic residues [active] 399739002685 substrate binding site [chemical binding]; other site 399739002686 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 399739002687 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 399739002688 N-terminal plug; other site 399739002689 ligand-binding site [chemical binding]; other site 399739002690 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 399739002691 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 399739002692 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 399739002693 active site 399739002694 substrate binding site [chemical binding]; other site 399739002695 FMN binding site [chemical binding]; other site 399739002696 putative catalytic residues [active] 399739002697 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 399739002698 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 399739002699 N-terminal plug; other site 399739002700 ligand-binding site [chemical binding]; other site 399739002701 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 399739002702 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 399739002703 N-terminal plug; other site 399739002704 ligand-binding site [chemical binding]; other site 399739002705 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 399739002706 putative active site [active] 399739002707 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 399739002708 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 399739002709 NADH(P)-binding; Region: NAD_binding_10; pfam13460 399739002710 NAD binding site [chemical binding]; other site 399739002711 substrate binding site [chemical binding]; other site 399739002712 putative active site [active] 399739002713 transcriptional regulator; Provisional; Region: PRK10632 399739002714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739002715 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 399739002716 putative effector binding pocket; other site 399739002717 dimerization interface [polypeptide binding]; other site 399739002718 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 399739002719 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 399739002720 ATP binding site [chemical binding]; other site 399739002721 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 399739002722 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 399739002723 DNA binding residues [nucleotide binding] 399739002724 dimer interface [polypeptide binding]; other site 399739002725 copper binding site [ion binding]; other site 399739002726 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 399739002727 active site flap/lid [active] 399739002728 nucleophilic elbow; other site 399739002729 catalytic triad [active] 399739002730 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 399739002731 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 399739002732 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 399739002733 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 399739002734 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399739002735 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 399739002736 metal-binding site [ion binding] 399739002737 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399739002738 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 399739002739 metal-binding site [ion binding] 399739002740 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399739002741 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 399739002742 motif II; other site 399739002743 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 399739002744 metal-binding site [ion binding] 399739002745 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 399739002746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739002747 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 399739002748 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739002749 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739002750 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739002751 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 399739002752 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 399739002753 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 399739002754 putative substrate translocation pore; other site 399739002755 Predicted metalloprotease [General function prediction only]; Region: COG2321 399739002756 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 399739002757 Predicted metal-binding protein [General function prediction only]; Region: COG3019 399739002758 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 399739002759 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 399739002760 S-adenosylmethionine binding site [chemical binding]; other site 399739002761 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 399739002762 DJ-1 family protein; Region: not_thiJ; TIGR01383 399739002763 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 399739002764 conserved cys residue [active] 399739002765 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 399739002766 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 399739002767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739002768 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 399739002769 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 399739002770 DNA binding site [nucleotide binding] 399739002771 active site 399739002772 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739002773 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 399739002774 substrate binding pocket [chemical binding]; other site 399739002775 membrane-bound complex binding site; other site 399739002776 hinge residues; other site 399739002777 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739002778 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 399739002779 putative active site [active] 399739002780 heme pocket [chemical binding]; other site 399739002781 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 399739002782 dimer interface [polypeptide binding]; other site 399739002783 phosphorylation site [posttranslational modification] 399739002784 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 399739002785 ATP binding site [chemical binding]; other site 399739002786 Mg2+ binding site [ion binding]; other site 399739002787 G-X-G motif; other site 399739002788 Response regulator receiver domain; Region: Response_reg; pfam00072 399739002789 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 399739002790 active site 399739002791 phosphorylation site [posttranslational modification] 399739002792 intermolecular recognition site; other site 399739002793 dimerization interface [polypeptide binding]; other site 399739002794 Response regulator receiver domain; Region: Response_reg; pfam00072 399739002795 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 399739002796 active site 399739002797 phosphorylation site [posttranslational modification] 399739002798 intermolecular recognition site; other site 399739002799 dimerization interface [polypeptide binding]; other site 399739002800 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 399739002801 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 399739002802 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 399739002803 active site 399739002804 phosphorylation site [posttranslational modification] 399739002805 intermolecular recognition site; other site 399739002806 dimerization interface [polypeptide binding]; other site 399739002807 HD domain; Region: HD_5; pfam13487 399739002808 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 399739002809 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399739002810 Walker A/P-loop; other site 399739002811 ATP binding site [chemical binding]; other site 399739002812 Q-loop/lid; other site 399739002813 ABC transporter signature motif; other site 399739002814 Walker B; other site 399739002815 D-loop; other site 399739002816 H-loop/switch region; other site 399739002817 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 399739002818 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 399739002819 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399739002820 Walker A/P-loop; other site 399739002821 ATP binding site [chemical binding]; other site 399739002822 Q-loop/lid; other site 399739002823 ABC transporter signature motif; other site 399739002824 Walker B; other site 399739002825 D-loop; other site 399739002826 H-loop/switch region; other site 399739002827 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399739002828 dipeptide transporter; Provisional; Region: PRK10913 399739002829 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 399739002830 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 399739002831 putative PBP binding loops; other site 399739002832 dimer interface [polypeptide binding]; other site 399739002833 ABC-ATPase subunit interface; other site 399739002834 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 399739002835 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 399739002836 dimer interface [polypeptide binding]; other site 399739002837 conserved gate region; other site 399739002838 putative PBP binding loops; other site 399739002839 ABC-ATPase subunit interface; other site 399739002840 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 399739002841 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 399739002842 peptide binding site [polypeptide binding]; other site 399739002843 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 399739002844 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 399739002845 non-specific DNA binding site [nucleotide binding]; other site 399739002846 salt bridge; other site 399739002847 sequence-specific DNA binding site [nucleotide binding]; other site 399739002848 Cupin domain; Region: Cupin_2; pfam07883 399739002849 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 399739002850 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 399739002851 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 399739002852 active site 399739002853 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 399739002854 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 399739002855 peptide binding site [polypeptide binding]; other site 399739002856 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 399739002857 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 399739002858 peptide binding site [polypeptide binding]; other site 399739002859 Protein of unknown function (DUF541); Region: SIMPL; cl01077 399739002860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739002861 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 399739002862 ATP binding site [chemical binding]; other site 399739002863 G-X-G motif; other site 399739002864 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 399739002865 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 399739002866 active site 399739002867 phosphorylation site [posttranslational modification] 399739002868 intermolecular recognition site; other site 399739002869 dimerization interface [polypeptide binding]; other site 399739002870 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739002871 Predicted permeases [General function prediction only]; Region: COG0679 399739002872 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 399739002873 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 399739002874 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 399739002875 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 399739002876 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 399739002877 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 399739002878 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 399739002879 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 399739002880 GatB domain; Region: GatB_Yqey; smart00845 399739002881 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 399739002882 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 399739002883 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 399739002884 rod shape-determining protein MreB; Provisional; Region: PRK13927 399739002885 MreB and similar proteins; Region: MreB_like; cd10225 399739002886 nucleotide binding site [chemical binding]; other site 399739002887 Mg binding site [ion binding]; other site 399739002888 putative protofilament interaction site [polypeptide binding]; other site 399739002889 RodZ interaction site [polypeptide binding]; other site 399739002890 rod shape-determining protein MreC; Provisional; Region: PRK13922 399739002891 rod shape-determining protein MreC; Region: MreC; pfam04085 399739002892 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 399739002893 Maf-like protein; Region: Maf; pfam02545 399739002894 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 399739002895 active site 399739002896 dimer interface [polypeptide binding]; other site 399739002897 ribonuclease G; Provisional; Region: PRK11712 399739002898 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 399739002899 homodimer interface [polypeptide binding]; other site 399739002900 oligonucleotide binding site [chemical binding]; other site 399739002901 TIGR02099 family protein; Region: TIGR02099 399739002902 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 399739002903 nitrilase; Region: PLN02798 399739002904 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 399739002905 putative active site [active] 399739002906 catalytic triad [active] 399739002907 dimer interface [polypeptide binding]; other site 399739002908 protease TldD; Provisional; Region: tldD; PRK10735 399739002909 hypothetical protein; Provisional; Region: PRK05255 399739002910 peptidase PmbA; Provisional; Region: PRK11040 399739002911 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 399739002912 dimerization domain swap beta strand [polypeptide binding]; other site 399739002913 regulatory protein interface [polypeptide binding]; other site 399739002914 active site 399739002915 regulatory phosphorylation site [posttranslational modification]; other site 399739002916 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 399739002917 AAA domain; Region: AAA_18; pfam13238 399739002918 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 399739002919 active site 399739002920 phosphorylation site [posttranslational modification] 399739002921 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 399739002922 30S subunit binding site; other site 399739002923 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 399739002924 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 399739002925 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 399739002926 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 399739002927 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 399739002928 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 399739002929 Walker A/P-loop; other site 399739002930 ATP binding site [chemical binding]; other site 399739002931 Q-loop/lid; other site 399739002932 ABC transporter signature motif; other site 399739002933 Walker B; other site 399739002934 D-loop; other site 399739002935 H-loop/switch region; other site 399739002936 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 399739002937 OstA-like protein; Region: OstA; pfam03968 399739002938 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 399739002939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 399739002940 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 399739002941 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 399739002942 active site 399739002943 motif I; other site 399739002944 motif II; other site 399739002945 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 399739002946 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 399739002947 putative active site [active] 399739002948 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 399739002949 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 399739002950 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 399739002951 Walker A/P-loop; other site 399739002952 ATP binding site [chemical binding]; other site 399739002953 Q-loop/lid; other site 399739002954 ABC transporter signature motif; other site 399739002955 Walker B; other site 399739002956 D-loop; other site 399739002957 H-loop/switch region; other site 399739002958 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 399739002959 Permease; Region: Permease; cl00510 399739002960 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 399739002961 mce related protein; Region: MCE; pfam02470 399739002962 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 399739002963 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 399739002964 anti sigma factor interaction site; other site 399739002965 regulatory phosphorylation site [posttranslational modification]; other site 399739002966 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 399739002967 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 399739002968 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 399739002969 hinge; other site 399739002970 active site 399739002971 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 399739002972 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 399739002973 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 399739002974 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 399739002975 NAD binding site [chemical binding]; other site 399739002976 dimerization interface [polypeptide binding]; other site 399739002977 product binding site; other site 399739002978 substrate binding site [chemical binding]; other site 399739002979 zinc binding site [ion binding]; other site 399739002980 catalytic residues [active] 399739002981 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 399739002982 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 399739002983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739002984 homodimer interface [polypeptide binding]; other site 399739002985 catalytic residue [active] 399739002986 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 399739002987 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399739002988 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 399739002989 N-terminal plug; other site 399739002990 ligand-binding site [chemical binding]; other site 399739002991 serine endoprotease; Provisional; Region: PRK10898 399739002992 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399739002993 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 399739002994 protein binding site [polypeptide binding]; other site 399739002995 Uncharacterized conserved protein [Function unknown]; Region: COG0327 399739002996 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 399739002997 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 399739002998 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 399739002999 Active Sites [active] 399739003000 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 399739003001 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 399739003002 CysD dimerization site [polypeptide binding]; other site 399739003003 G1 box; other site 399739003004 putative GEF interaction site [polypeptide binding]; other site 399739003005 GTP/Mg2+ binding site [chemical binding]; other site 399739003006 Switch I region; other site 399739003007 G2 box; other site 399739003008 G3 box; other site 399739003009 Switch II region; other site 399739003010 G4 box; other site 399739003011 G5 box; other site 399739003012 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 399739003013 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 399739003014 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 399739003015 ligand-binding site [chemical binding]; other site 399739003016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 399739003017 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 399739003018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739003019 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 399739003020 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 399739003021 active site 399739003022 HIGH motif; other site 399739003023 dimer interface [polypeptide binding]; other site 399739003024 KMSKS motif; other site 399739003025 Predicted ATPase [General function prediction only]; Region: COG1485 399739003026 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739003027 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 399739003028 conserved cys residue [active] 399739003029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739003030 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739003031 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739003032 active site 399739003033 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 399739003034 Active_site [active] 399739003035 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 399739003036 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739003037 active site 399739003038 catalytic tetrad [active] 399739003039 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 399739003040 23S rRNA interface [nucleotide binding]; other site 399739003041 L3 interface [polypeptide binding]; other site 399739003042 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 399739003043 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 399739003044 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 399739003045 [2Fe-2S] cluster binding site [ion binding]; other site 399739003046 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 399739003047 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 399739003048 Qi binding site; other site 399739003049 intrachain domain interface; other site 399739003050 interchain domain interface [polypeptide binding]; other site 399739003051 heme bH binding site [chemical binding]; other site 399739003052 heme bL binding site [chemical binding]; other site 399739003053 Qo binding site; other site 399739003054 interchain domain interface [polypeptide binding]; other site 399739003055 intrachain domain interface; other site 399739003056 Qi binding site; other site 399739003057 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 399739003058 Qo binding site; other site 399739003059 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 399739003060 stringent starvation protein A; Provisional; Region: sspA; PRK09481 399739003061 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 399739003062 C-terminal domain interface [polypeptide binding]; other site 399739003063 putative GSH binding site (G-site) [chemical binding]; other site 399739003064 dimer interface [polypeptide binding]; other site 399739003065 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 399739003066 dimer interface [polypeptide binding]; other site 399739003067 N-terminal domain interface [polypeptide binding]; other site 399739003068 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 399739003069 BON domain; Region: BON; pfam04972 399739003070 BON domain; Region: BON; cl02771 399739003071 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 399739003072 dimer interface [polypeptide binding]; other site 399739003073 active site 399739003074 hypothetical protein; Reviewed; Region: PRK12497 399739003075 LppC putative lipoprotein; Region: LppC; pfam04348 399739003076 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 399739003077 putative ligand binding site [chemical binding]; other site 399739003078 Predicted methyltransferases [General function prediction only]; Region: COG0313 399739003079 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 399739003080 putative SAM binding site [chemical binding]; other site 399739003081 putative homodimer interface [polypeptide binding]; other site 399739003082 cell division protein MraZ; Reviewed; Region: PRK00326 399739003083 MraZ protein; Region: MraZ; pfam02381 399739003084 MraZ protein; Region: MraZ; pfam02381 399739003085 MraW methylase family; Region: Methyltransf_5; pfam01795 399739003086 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 399739003087 Cell division protein FtsL; Region: FtsL; pfam04999 399739003088 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 399739003089 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 399739003090 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 399739003091 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 399739003092 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399739003093 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739003094 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399739003095 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399739003096 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 399739003097 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739003098 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399739003099 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 399739003100 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 399739003101 Mg++ binding site [ion binding]; other site 399739003102 putative catalytic motif [active] 399739003103 putative substrate binding site [chemical binding]; other site 399739003104 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 399739003105 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739003106 cell division protein FtsW; Region: ftsW; TIGR02614 399739003107 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 399739003108 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 399739003109 active site 399739003110 homodimer interface [polypeptide binding]; other site 399739003111 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 399739003112 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399739003113 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739003114 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399739003115 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 399739003116 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 399739003117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739003118 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 399739003119 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 399739003120 Cell division protein FtsQ; Region: FtsQ; pfam03799 399739003121 cell division protein FtsA; Region: ftsA; TIGR01174 399739003122 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399739003123 nucleotide binding site [chemical binding]; other site 399739003124 Cell division protein FtsA; Region: FtsA; pfam14450 399739003125 cell division protein FtsZ; Validated; Region: PRK09330 399739003126 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 399739003127 nucleotide binding site [chemical binding]; other site 399739003128 SulA interaction site; other site 399739003129 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 399739003130 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 399739003131 Protein of unknown function (DUF721); Region: DUF721; pfam05258 399739003132 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399739003133 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739003134 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 399739003135 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 399739003136 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 399739003137 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 399739003138 nucleotide binding region [chemical binding]; other site 399739003139 ATP-binding site [chemical binding]; other site 399739003140 SEC-C motif; Region: SEC-C; pfam02810 399739003141 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 399739003142 heterotetramer interface [polypeptide binding]; other site 399739003143 active site pocket [active] 399739003144 cleavage site 399739003145 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 399739003146 maleylacetoacetate isomerase; Region: maiA; TIGR01262 399739003147 putative C-terminal domain interface [polypeptide binding]; other site 399739003148 putative GSH binding site (G-site) [chemical binding]; other site 399739003149 putative dimer interface [polypeptide binding]; other site 399739003150 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 399739003151 putative N-terminal domain interface [polypeptide binding]; other site 399739003152 putative dimer interface [polypeptide binding]; other site 399739003153 putative substrate binding pocket (H-site) [chemical binding]; other site 399739003154 hypothetical protein; Provisional; Region: PRK08999 399739003155 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 399739003156 active site 399739003157 8-oxo-dGMP binding site [chemical binding]; other site 399739003158 nudix motif; other site 399739003159 metal binding site [ion binding]; metal-binding site 399739003160 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 399739003161 thiamine phosphate binding site [chemical binding]; other site 399739003162 active site 399739003163 pyrophosphate binding site [ion binding]; other site 399739003164 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 399739003165 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 399739003166 dimerization interface [polypeptide binding]; other site 399739003167 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 399739003168 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 399739003169 dimer interface [polypeptide binding]; other site 399739003170 phosphorylation site [posttranslational modification] 399739003171 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 399739003172 ATP binding site [chemical binding]; other site 399739003173 Mg2+ binding site [ion binding]; other site 399739003174 G-X-G motif; other site 399739003175 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 399739003176 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 399739003177 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 399739003178 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739003179 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 399739003180 active site 399739003181 phosphorylation site [posttranslational modification] 399739003182 intermolecular recognition site; other site 399739003183 dimerization interface [polypeptide binding]; other site 399739003184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739003185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739003186 metal binding site [ion binding]; metal-binding site 399739003187 active site 399739003188 I-site; other site 399739003189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 399739003190 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 399739003191 mechanosensitive channel MscS; Provisional; Region: PRK10334 399739003192 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739003193 muropeptide transporter; Validated; Region: ampG; cl17669 399739003194 muropeptide transporter; Validated; Region: ampG; cl17669 399739003195 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 399739003196 DNA binding site [nucleotide binding] 399739003197 active site 399739003198 Protein of unknown function, DUF481; Region: DUF481; pfam04338 399739003199 Sm and related proteins; Region: Sm_like; cl00259 399739003200 Sm1 motif; other site 399739003201 hexamer interface [polypeptide binding]; other site 399739003202 heptamer interface [polypeptide binding]; other site 399739003203 RNA binding site [nucleotide binding]; other site 399739003204 Sm2 motif; other site 399739003205 Protein of unknown function, DUF481; Region: DUF481; pfam04338 399739003206 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 399739003207 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739003208 active site 399739003209 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739003210 active site 399739003211 putative transporter; Provisional; Region: PRK11660 399739003212 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399739003213 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399739003214 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 399739003215 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 399739003216 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 399739003217 MviN-like protein; Region: MVIN; pfam03023 399739003218 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 399739003219 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 399739003220 active site 399739003221 Riboflavin kinase; Region: Flavokinase; smart00904 399739003222 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 399739003223 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739003224 active site 399739003225 HIGH motif; other site 399739003226 nucleotide binding site [chemical binding]; other site 399739003227 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 399739003228 active site 399739003229 KMSKS motif; other site 399739003230 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 399739003231 tRNA binding surface [nucleotide binding]; other site 399739003232 anticodon binding site; other site 399739003233 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 399739003234 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 399739003235 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 399739003236 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739003237 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 399739003238 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 399739003239 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 399739003240 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 399739003241 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 399739003242 PilX N-terminal; Region: PilX_N; pfam14341 399739003243 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 399739003244 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 399739003245 Type II transport protein GspH; Region: GspH; pfam12019 399739003246 Type II transport protein GspH; Region: GspH; pfam12019 399739003247 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739003248 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 399739003249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739003250 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 399739003251 active site 399739003252 phosphorylation site [posttranslational modification] 399739003253 intermolecular recognition site; other site 399739003254 dimerization interface [polypeptide binding]; other site 399739003255 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 399739003256 Walker A motif; other site 399739003257 ATP binding site [chemical binding]; other site 399739003258 Walker B motif; other site 399739003259 arginine finger; other site 399739003260 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739003261 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 399739003262 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739003263 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 399739003264 dimer interface [polypeptide binding]; other site 399739003265 phosphorylation site [posttranslational modification] 399739003266 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 399739003267 ATP binding site [chemical binding]; other site 399739003268 Mg2+ binding site [ion binding]; other site 399739003269 G-X-G motif; other site 399739003270 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 399739003271 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 399739003272 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 399739003273 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 399739003274 RNA binding surface [nucleotide binding]; other site 399739003275 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399739003276 active site 399739003277 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 399739003278 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 399739003279 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739003280 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739003281 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 399739003282 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399739003283 putative active site [active] 399739003284 putative FMN binding site [chemical binding]; other site 399739003285 putative substrate binding site [chemical binding]; other site 399739003286 putative catalytic residue [active] 399739003287 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739003288 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 399739003289 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 399739003290 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 399739003291 hydrophobic ligand binding site; other site 399739003292 putative sulfate transport protein CysZ; Validated; Region: PRK04949 399739003293 CHASE4 domain; Region: CHASE4; pfam05228 399739003294 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 399739003295 dimerization interface [polypeptide binding]; other site 399739003296 PAS domain S-box; Region: sensory_box; TIGR00229 399739003297 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 399739003298 putative active site [active] 399739003299 heme pocket [chemical binding]; other site 399739003300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739003301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739003302 metal binding site [ion binding]; metal-binding site 399739003303 active site 399739003304 I-site; other site 399739003305 thioredoxin reductase; Provisional; Region: PRK10262 399739003306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739003307 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739003308 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 399739003309 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 399739003310 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 399739003311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 399739003312 dimer interface [polypeptide binding]; other site 399739003313 active site 399739003314 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739003315 catalytic residues [active] 399739003316 substrate binding site [chemical binding]; other site 399739003317 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 399739003318 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 399739003319 NAD(P) binding pocket [chemical binding]; other site 399739003320 2-isopropylmalate synthase; Validated; Region: PRK00915 399739003321 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 399739003322 active site 399739003323 catalytic residues [active] 399739003324 metal binding site [ion binding]; metal-binding site 399739003325 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 399739003326 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 399739003327 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739003328 Coenzyme A binding pocket [chemical binding]; other site 399739003329 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 399739003330 iron-sulfur cluster [ion binding]; other site 399739003331 [2Fe-2S] cluster binding site [ion binding]; other site 399739003332 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 399739003333 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 399739003334 intersubunit interface [polypeptide binding]; other site 399739003335 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 399739003336 ABC-ATPase subunit interface; other site 399739003337 dimer interface [polypeptide binding]; other site 399739003338 putative PBP binding regions; other site 399739003339 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 399739003340 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399739003341 Walker A/P-loop; other site 399739003342 ATP binding site [chemical binding]; other site 399739003343 Q-loop/lid; other site 399739003344 ABC transporter signature motif; other site 399739003345 Walker B; other site 399739003346 D-loop; other site 399739003347 H-loop/switch region; other site 399739003348 Protein of unknown function, DUF399; Region: DUF399; cl01139 399739003349 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 399739003350 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 399739003351 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399739003352 ligand binding site [chemical binding]; other site 399739003353 flexible hinge region; other site 399739003354 TfoX C-terminal domain; Region: TfoX_C; pfam04994 399739003355 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 399739003356 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 399739003357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 399739003358 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 399739003359 AAA domain; Region: AAA_33; pfam13671 399739003360 active site 399739003361 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 399739003362 Transglycosylase; Region: Transgly; pfam00912 399739003363 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399739003364 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 399739003365 TPR motif; other site 399739003366 binding surface 399739003367 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 399739003368 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739003369 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 399739003370 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 399739003371 PYR/PP interface [polypeptide binding]; other site 399739003372 dimer interface [polypeptide binding]; other site 399739003373 TPP binding site [chemical binding]; other site 399739003374 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399739003375 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 399739003376 TPP-binding site [chemical binding]; other site 399739003377 dimer interface [polypeptide binding]; other site 399739003378 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 399739003379 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 399739003380 putative valine binding site [chemical binding]; other site 399739003381 dimer interface [polypeptide binding]; other site 399739003382 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 399739003383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003384 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 399739003385 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 399739003386 putative dimerization interface [polypeptide binding]; other site 399739003387 ketol-acid reductoisomerase; Provisional; Region: PRK05479 399739003388 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 399739003389 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 399739003390 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 399739003391 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 399739003392 TMAO/DMSO reductase; Reviewed; Region: PRK05363 399739003393 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 399739003394 Moco binding site; other site 399739003395 metal coordination site [ion binding]; other site 399739003396 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 399739003397 Paraquat-inducible protein A; Region: PqiA; pfam04403 399739003398 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 399739003399 Paraquat-inducible protein A; Region: PqiA; pfam04403 399739003400 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 399739003401 mce related protein; Region: MCE; pfam02470 399739003402 mce related protein; Region: MCE; pfam02470 399739003403 mce related protein; Region: MCE; pfam02470 399739003404 mce related protein; Region: MCE; pfam02470 399739003405 mce related protein; Region: MCE; pfam02470 399739003406 mce related protein; Region: MCE; pfam02470 399739003407 Predicted ATPase [General function prediction only]; Region: COG4637 399739003408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739003409 Walker A/P-loop; other site 399739003410 ATP binding site [chemical binding]; other site 399739003411 short chain dehydrogenase; Provisional; Region: PRK05693 399739003412 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 399739003413 NADP binding site [chemical binding]; other site 399739003414 active site 399739003415 steroid binding site; other site 399739003416 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 399739003417 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 399739003418 Substrate binding site; other site 399739003419 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 399739003420 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 399739003421 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 399739003422 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; cl00179 399739003423 active site 399739003424 Right handed beta helix region; Region: Beta_helix; pfam13229 399739003425 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 399739003426 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 399739003427 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399739003428 PilZ domain; Region: PilZ; pfam07238 399739003429 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 399739003430 lipoyl-biotinyl attachment site [posttranslational modification]; other site 399739003431 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739003432 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399739003433 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 399739003434 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 399739003435 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399739003436 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 399739003437 hypothetical protein; Validated; Region: PRK02101 399739003438 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 399739003439 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 399739003440 putative active site [active] 399739003441 PhoH-like protein; Region: PhoH; pfam02562 399739003442 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 399739003443 trimer interface [polypeptide binding]; other site 399739003444 dimer interface [polypeptide binding]; other site 399739003445 putative active site [active] 399739003446 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 399739003447 MoaE interaction surface [polypeptide binding]; other site 399739003448 MoeB interaction surface [polypeptide binding]; other site 399739003449 thiocarboxylated glycine; other site 399739003450 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 399739003451 MoaE homodimer interface [polypeptide binding]; other site 399739003452 MoaD interaction [polypeptide binding]; other site 399739003453 active site residues [active] 399739003454 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 399739003455 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 399739003456 active site 399739003457 metal binding site [ion binding]; metal-binding site 399739003458 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 399739003459 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399739003460 EamA-like transporter family; Region: EamA; pfam00892 399739003461 EamA-like transporter family; Region: EamA; pfam00892 399739003462 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 399739003463 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 399739003464 oligomeric interface; other site 399739003465 putative active site [active] 399739003466 homodimer interface [polypeptide binding]; other site 399739003467 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 399739003468 NACHT domain; Region: NACHT; pfam05729 399739003469 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 399739003470 HEAT repeats; Region: HEAT_2; pfam13646 399739003471 HEAT repeats; Region: HEAT_2; pfam13646 399739003472 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739003473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739003474 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739003475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739003476 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739003477 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739003478 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739003479 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739003480 GTP-binding protein YchF; Reviewed; Region: PRK09601 399739003481 YchF GTPase; Region: YchF; cd01900 399739003482 G1 box; other site 399739003483 GTP/Mg2+ binding site [chemical binding]; other site 399739003484 Switch I region; other site 399739003485 G2 box; other site 399739003486 Switch II region; other site 399739003487 G3 box; other site 399739003488 G4 box; other site 399739003489 G5 box; other site 399739003490 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 399739003491 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 399739003492 putative active site [active] 399739003493 catalytic residue [active] 399739003494 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 399739003495 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 399739003496 5S rRNA interface [nucleotide binding]; other site 399739003497 CTC domain interface [polypeptide binding]; other site 399739003498 L16 interface [polypeptide binding]; other site 399739003499 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 399739003500 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 399739003501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739003502 active site 399739003503 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 399739003504 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 399739003505 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 399739003506 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 399739003507 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 399739003508 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 399739003509 TPR motif; other site 399739003510 binding surface 399739003511 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 399739003512 binding surface 399739003513 TPR motif; other site 399739003514 TPR repeat; Region: TPR_11; pfam13414 399739003515 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 399739003516 binding surface 399739003517 TPR motif; other site 399739003518 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 399739003519 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 399739003520 tRNA; other site 399739003521 putative tRNA binding site [nucleotide binding]; other site 399739003522 putative NADP binding site [chemical binding]; other site 399739003523 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 399739003524 peptide chain release factor 1; Validated; Region: prfA; PRK00591 399739003525 This domain is found in peptide chain release factors; Region: PCRF; smart00937 399739003526 RF-1 domain; Region: RF-1; pfam00472 399739003527 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 399739003528 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 399739003529 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 399739003530 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 399739003531 ATP binding site [chemical binding]; other site 399739003532 substrate interface [chemical binding]; other site 399739003533 glutamate racemase; Provisional; Region: PRK00865 399739003534 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 399739003535 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 399739003536 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 399739003537 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 399739003538 S-adenosylmethionine binding site [chemical binding]; other site 399739003539 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 399739003540 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 399739003541 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739003542 short chain dehydrogenase; Provisional; Region: PRK06101 399739003543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739003544 NAD(P) binding site [chemical binding]; other site 399739003545 active site 399739003546 SnoaL-like domain; Region: SnoaL_2; pfam12680 399739003547 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 399739003548 DNA photolyase; Region: DNA_photolyase; pfam00875 399739003549 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 399739003550 DNA binding residues [nucleotide binding] 399739003551 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739003552 B12 binding domain; Region: B12-binding_2; pfam02607 399739003553 Protein of unknown function (DUF523); Region: DUF523; pfam04463 399739003554 Uncharacterized conserved protein [Function unknown]; Region: COG3272 399739003555 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 399739003556 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 399739003557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739003558 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 399739003559 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 399739003560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739003561 NAD(P) binding site [chemical binding]; other site 399739003562 active site 399739003563 ferrochelatase; Reviewed; Region: hemH; PRK00035 399739003564 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 399739003565 C-terminal domain interface [polypeptide binding]; other site 399739003566 active site 399739003567 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 399739003568 active site 399739003569 N-terminal domain interface [polypeptide binding]; other site 399739003570 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 399739003571 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739003572 putative substrate translocation pore; other site 399739003573 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 399739003574 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739003575 substrate binding pocket [chemical binding]; other site 399739003576 membrane-bound complex binding site; other site 399739003577 hinge residues; other site 399739003578 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 399739003579 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 399739003580 PhnA protein; Region: PhnA; pfam03831 399739003581 Peptidase C26; Region: Peptidase_C26; pfam07722 399739003582 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 399739003583 catalytic triad [active] 399739003584 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399739003585 EamA-like transporter family; Region: EamA; pfam00892 399739003586 Uncharacterized conserved protein [Function unknown]; Region: COG2128 399739003587 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 399739003588 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 399739003589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739003590 DNA-binding site [nucleotide binding]; DNA binding site 399739003591 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 399739003592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739003593 homodimer interface [polypeptide binding]; other site 399739003594 catalytic residue [active] 399739003595 Water Stress and Hypersensitive response; Region: WHy; smart00769 399739003596 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 399739003597 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 399739003598 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 399739003599 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 399739003600 putative active site [active] 399739003601 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 399739003602 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739003603 Walker A/P-loop; other site 399739003604 ATP binding site [chemical binding]; other site 399739003605 Q-loop/lid; other site 399739003606 ABC transporter signature motif; other site 399739003607 Walker B; other site 399739003608 D-loop; other site 399739003609 H-loop/switch region; other site 399739003610 Predicted deacylase [General function prediction only]; Region: COG3608 399739003611 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 399739003612 active site 399739003613 Zn binding site [ion binding]; other site 399739003614 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 399739003615 dimer interface [polypeptide binding]; other site 399739003616 conserved gate region; other site 399739003617 putative PBP binding loops; other site 399739003618 ABC-ATPase subunit interface; other site 399739003619 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739003620 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 399739003621 dimer interface [polypeptide binding]; other site 399739003622 conserved gate region; other site 399739003623 putative PBP binding loops; other site 399739003624 ABC-ATPase subunit interface; other site 399739003625 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 399739003626 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 399739003627 substrate binding pocket [chemical binding]; other site 399739003628 membrane-bound complex binding site; other site 399739003629 hinge residues; other site 399739003630 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 399739003631 proposed catalytic triad [active] 399739003632 active site nucleophile [active] 399739003633 outer membrane porin, OprD family; Region: OprD; pfam03573 399739003634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739003635 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 399739003636 substrate binding pocket [chemical binding]; other site 399739003637 membrane-bound complex binding site; other site 399739003638 hinge residues; other site 399739003639 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 399739003640 proposed catalytic triad [active] 399739003641 active site nucleophile [active] 399739003642 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 399739003643 classical (c) SDRs; Region: SDR_c; cd05233 399739003644 NAD(P) binding site [chemical binding]; other site 399739003645 active site 399739003646 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739003647 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739003648 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 399739003649 CoenzymeA binding site [chemical binding]; other site 399739003650 subunit interaction site [polypeptide binding]; other site 399739003651 PHB binding site; other site 399739003652 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 399739003653 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 399739003654 putative substrate translocation pore; other site 399739003655 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 399739003656 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 399739003657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739003658 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399739003659 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 399739003660 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 399739003661 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 399739003662 putative substrate binding site [chemical binding]; other site 399739003663 nucleotide binding site [chemical binding]; other site 399739003664 nucleotide binding site [chemical binding]; other site 399739003665 homodimer interface [polypeptide binding]; other site 399739003666 ornithine carbamoyltransferase; Validated; Region: PRK02102 399739003667 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 399739003668 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 399739003669 arginine deiminase; Provisional; Region: PRK01388 399739003670 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 399739003671 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 399739003672 Predicted transcriptional regulator [Transcription]; Region: COG3905 399739003673 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 399739003674 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 399739003675 Glutamate binding site [chemical binding]; other site 399739003676 NAD binding site [chemical binding]; other site 399739003677 catalytic residues [active] 399739003678 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 399739003679 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739003680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739003681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003682 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 399739003683 putative effector binding pocket; other site 399739003684 dimerization interface [polypeptide binding]; other site 399739003685 Lysine efflux permease [General function prediction only]; Region: COG1279 399739003686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 399739003687 ACT domain; Region: ACT_3; pfam10000 399739003688 Family description; Region: ACT_7; pfam13840 399739003689 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 399739003690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003691 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 399739003692 dimerization interface [polypeptide binding]; other site 399739003693 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739003694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739003695 NAD(P) binding site [chemical binding]; other site 399739003696 active site 399739003697 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399739003698 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 399739003699 FMN binding site [chemical binding]; other site 399739003700 active site 399739003701 substrate binding site [chemical binding]; other site 399739003702 catalytic residue [active] 399739003703 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 399739003704 dimerization interface [polypeptide binding]; other site 399739003705 putative DNA binding site [nucleotide binding]; other site 399739003706 putative Zn2+ binding site [ion binding]; other site 399739003707 Protein of unknown function, DUF479; Region: DUF479; cl01203 399739003708 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 399739003709 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 399739003710 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399739003711 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 399739003712 Soluble P-type ATPase [General function prediction only]; Region: COG4087 399739003713 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 399739003714 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 399739003715 Ligand Binding Site [chemical binding]; other site 399739003716 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 399739003717 Ligand Binding Site [chemical binding]; other site 399739003718 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739003719 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739003720 putative acyl-acceptor binding pocket; other site 399739003721 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 399739003722 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739003723 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739003724 active site 399739003725 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 399739003726 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739003727 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 399739003728 Beta-lactamase; Region: Beta-lactamase; pfam00144 399739003729 YceI-like domain; Region: YceI; pfam04264 399739003730 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 399739003731 PLD-like domain; Region: PLDc_2; pfam13091 399739003732 putative active site [active] 399739003733 catalytic site [active] 399739003734 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 399739003735 PLD-like domain; Region: PLDc_2; pfam13091 399739003736 putative active site [active] 399739003737 catalytic site [active] 399739003738 Part of AAA domain; Region: AAA_19; pfam13245 399739003739 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 399739003740 AAA domain; Region: AAA_12; pfam13087 399739003741 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 399739003742 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739003743 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739003744 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 399739003745 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 399739003746 DNA binding residues [nucleotide binding] 399739003747 dimerization interface [polypeptide binding]; other site 399739003748 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 399739003749 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 399739003750 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 399739003751 dimer interface [polypeptide binding]; other site 399739003752 active site 399739003753 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 399739003754 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 399739003755 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739003756 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003757 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 399739003758 putative dimerization interface [polypeptide binding]; other site 399739003759 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 399739003760 Ligand binding site; other site 399739003761 metal-binding site 399739003762 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 399739003763 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 399739003764 potential catalytic triad [active] 399739003765 conserved cys residue [active] 399739003766 Uncharacterized conserved protein [Function unknown]; Region: COG1359 399739003767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739003768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003769 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 399739003770 substrate binding pocket [chemical binding]; other site 399739003771 dimerization interface [polypeptide binding]; other site 399739003772 YcaO domain protein; Region: TIGR03549 399739003773 OsmC-like protein; Region: OsmC; pfam02566 399739003774 YcaO-like family; Region: YcaO; pfam02624 399739003775 glucokinase; Provisional; Region: glk; PRK00292 399739003776 glucokinase, proteobacterial type; Region: glk; TIGR00749 399739003777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739003778 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 399739003779 active site 399739003780 phosphorylation site [posttranslational modification] 399739003781 intermolecular recognition site; other site 399739003782 dimerization interface [polypeptide binding]; other site 399739003783 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 399739003784 DNA binding site [nucleotide binding] 399739003785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739003786 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 399739003787 ATP binding site [chemical binding]; other site 399739003788 Mg2+ binding site [ion binding]; other site 399739003789 G-X-G motif; other site 399739003790 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 399739003791 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739003792 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 399739003793 dimer interface [polypeptide binding]; other site 399739003794 conserved gate region; other site 399739003795 putative PBP binding loops; other site 399739003796 ABC-ATPase subunit interface; other site 399739003797 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 399739003798 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 399739003799 dimer interface [polypeptide binding]; other site 399739003800 conserved gate region; other site 399739003801 putative PBP binding loops; other site 399739003802 ABC-ATPase subunit interface; other site 399739003803 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 399739003804 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 399739003805 Walker A/P-loop; other site 399739003806 ATP binding site [chemical binding]; other site 399739003807 Q-loop/lid; other site 399739003808 ABC transporter signature motif; other site 399739003809 Walker B; other site 399739003810 D-loop; other site 399739003811 H-loop/switch region; other site 399739003812 TOBE domain; Region: TOBE_2; pfam08402 399739003813 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 399739003814 trimer interface; other site 399739003815 sugar binding site [chemical binding]; other site 399739003816 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 399739003817 active site 399739003818 phosphate binding residues; other site 399739003819 catalytic residues [active] 399739003820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739003821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003822 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 399739003823 putative effector binding pocket; other site 399739003824 dimerization interface [polypeptide binding]; other site 399739003825 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 399739003826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003827 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 399739003828 putative substrate binding pocket [chemical binding]; other site 399739003829 putative dimerization interface [polypeptide binding]; other site 399739003830 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 399739003831 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 399739003832 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 399739003833 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739003834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739003835 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739003836 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739003837 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739003838 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739003839 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739003840 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739003841 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 399739003842 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 399739003843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739003844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739003845 outer membrane porin, OprD family; Region: OprD; pfam03573 399739003846 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739003847 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739003848 outer membrane porin, OprD family; Region: OprD; pfam03573 399739003849 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 399739003850 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 399739003851 dimerization interface [polypeptide binding]; other site 399739003852 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 399739003853 dimer interface [polypeptide binding]; other site 399739003854 phosphorylation site [posttranslational modification] 399739003855 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 399739003856 ATP binding site [chemical binding]; other site 399739003857 Mg2+ binding site [ion binding]; other site 399739003858 G-X-G motif; other site 399739003859 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 399739003860 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 399739003861 active site 399739003862 phosphorylation site [posttranslational modification] 399739003863 intermolecular recognition site; other site 399739003864 dimerization interface [polypeptide binding]; other site 399739003865 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 399739003866 DNA binding site [nucleotide binding] 399739003867 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 399739003868 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 399739003869 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 399739003870 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739003871 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 399739003872 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 399739003873 non-specific DNA binding site [nucleotide binding]; other site 399739003874 salt bridge; other site 399739003875 sequence-specific DNA binding site [nucleotide binding]; other site 399739003876 hypothetical protein; Reviewed; Region: PRK00024 399739003877 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 399739003878 MPN+ (JAMM) motif; other site 399739003879 Zinc-binding site [ion binding]; other site 399739003880 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 399739003881 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 399739003882 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 399739003883 ATP binding site [chemical binding]; other site 399739003884 putative Mg++ binding site [ion binding]; other site 399739003885 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 399739003886 nucleotide binding region [chemical binding]; other site 399739003887 ATP-binding site [chemical binding]; other site 399739003888 integrase; Provisional; Region: PRK09692 399739003889 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 399739003890 active site 399739003891 Int/Topo IB signature motif; other site 399739003892 Cache domain; Region: Cache_1; pfam02743 399739003893 PAS fold; Region: PAS_3; pfam08447 399739003894 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 399739003895 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739003896 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 399739003897 dimer interface [polypeptide binding]; other site 399739003898 phosphorylation site [posttranslational modification] 399739003899 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 399739003900 ATP binding site [chemical binding]; other site 399739003901 Mg2+ binding site [ion binding]; other site 399739003902 G-X-G motif; other site 399739003903 Response regulator receiver domain; Region: Response_reg; pfam00072 399739003904 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 399739003905 active site 399739003906 phosphorylation site [posttranslational modification] 399739003907 intermolecular recognition site; other site 399739003908 dimerization interface [polypeptide binding]; other site 399739003909 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 399739003910 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 399739003911 putative active site [active] 399739003912 adenylation catalytic residue [active] 399739003913 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 399739003914 active site 399739003915 NTP binding site [chemical binding]; other site 399739003916 metal binding triad [ion binding]; metal-binding site 399739003917 antibiotic binding site [chemical binding]; other site 399739003918 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 399739003919 hypothetical protein; Reviewed; Region: PRK09588 399739003920 Probable zinc-binding domain; Region: zf-trcl; pfam13451 399739003921 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399739003922 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 399739003923 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 399739003924 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 399739003925 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 399739003926 Walker A motif; other site 399739003927 ATP binding site [chemical binding]; other site 399739003928 Walker B motif; other site 399739003929 arginine finger; other site 399739003930 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 399739003931 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 399739003932 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 399739003933 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 399739003934 TrkA-N domain; Region: TrkA_N; pfam02254 399739003935 AAA domain; Region: AAA_32; pfam13654 399739003936 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 399739003937 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 399739003938 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399739003939 hypothetical protein; Provisional; Region: PRK05208 399739003940 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 399739003941 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 399739003942 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 399739003943 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399739003944 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399739003945 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739003946 multidrug efflux protein; Reviewed; Region: PRK09579 399739003947 Protein export membrane protein; Region: SecD_SecF; cl14618 399739003948 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739003949 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739003950 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739003951 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 399739003952 dimerization interface [polypeptide binding]; other site 399739003953 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739003954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739003955 dimer interface [polypeptide binding]; other site 399739003956 putative CheW interface [polypeptide binding]; other site 399739003957 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 399739003958 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 399739003959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 399739003960 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 399739003961 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 399739003962 active site 399739003963 tetramer interface [polypeptide binding]; other site 399739003964 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 399739003965 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 399739003966 putative active site [active] 399739003967 catalytic residue [active] 399739003968 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 399739003969 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 399739003970 active site 399739003971 tetramer interface [polypeptide binding]; other site 399739003972 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 399739003973 D-galactonate transporter; Region: 2A0114; TIGR00893 399739003974 putative substrate translocation pore; other site 399739003975 galactarate dehydratase; Region: galactar-dH20; TIGR03248 399739003976 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 399739003977 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 399739003978 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 399739003979 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 399739003980 putative ligand binding site [chemical binding]; other site 399739003981 NAD binding site [chemical binding]; other site 399739003982 catalytic site [active] 399739003983 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399739003984 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399739003985 Walker A/P-loop; other site 399739003986 ATP binding site [chemical binding]; other site 399739003987 Q-loop/lid; other site 399739003988 ABC transporter signature motif; other site 399739003989 Walker B; other site 399739003990 D-loop; other site 399739003991 H-loop/switch region; other site 399739003992 ABC-2 type transporter; Region: ABC2_membrane; cl17235 399739003993 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399739003994 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 399739003995 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 399739003996 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 399739003997 Walker A motif; other site 399739003998 ATP binding site [chemical binding]; other site 399739003999 Walker B motif; other site 399739004000 arginine finger; other site 399739004001 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399739004002 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739004003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739004004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739004005 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 399739004006 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 399739004007 dimerization interface [polypeptide binding]; other site 399739004008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739004009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739004010 metal binding site [ion binding]; metal-binding site 399739004011 active site 399739004012 I-site; other site 399739004013 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 399739004014 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 399739004015 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 399739004016 apolar tunnel; other site 399739004017 heme binding site [chemical binding]; other site 399739004018 dimerization interface [polypeptide binding]; other site 399739004019 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 399739004020 dimer interface [polypeptide binding]; other site 399739004021 active site 399739004022 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 399739004023 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 399739004024 active site 399739004025 metal binding site [ion binding]; metal-binding site 399739004026 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399739004027 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399739004028 active site 399739004029 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 399739004030 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 399739004031 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 399739004032 Switch I; other site 399739004033 Switch II; other site 399739004034 septum formation inhibitor; Reviewed; Region: minC; PRK00339 399739004035 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 399739004036 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 399739004037 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 399739004038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 399739004039 putative acyl-acceptor binding pocket; other site 399739004040 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 399739004041 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 399739004042 active site 399739004043 nucleophile elbow; other site 399739004044 Pirin-related protein [General function prediction only]; Region: COG1741 399739004045 Pirin; Region: Pirin; pfam02678 399739004046 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 399739004047 VacJ like lipoprotein; Region: VacJ; cl01073 399739004048 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739004049 Coenzyme A binding pocket [chemical binding]; other site 399739004050 Predicted membrane protein [Function unknown]; Region: COG3205 399739004051 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 399739004052 short chain dehydrogenase; Provisional; Region: PRK05650 399739004053 classical (c) SDRs; Region: SDR_c; cd05233 399739004054 NAD(P) binding site [chemical binding]; other site 399739004055 active site 399739004056 cyanate transporter; Region: CynX; TIGR00896 399739004057 hypothetical protein; Provisional; Region: PRK02237 399739004058 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 399739004059 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 399739004060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 399739004061 Protein of unknown function, DUF482; Region: DUF482; pfam04339 399739004062 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 399739004063 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 399739004064 Na binding site [ion binding]; other site 399739004065 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 399739004066 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739004067 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 399739004068 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 399739004069 Transglycosylase; Region: Transgly; cl17702 399739004070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399739004071 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 399739004072 S-adenosylmethionine binding site [chemical binding]; other site 399739004073 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 399739004074 active site 399739004075 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 399739004076 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739004077 active site 399739004078 catalytic tetrad [active] 399739004079 prolyl-tRNA synthetase; Provisional; Region: PRK09194 399739004080 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 399739004081 dimer interface [polypeptide binding]; other site 399739004082 motif 1; other site 399739004083 active site 399739004084 motif 2; other site 399739004085 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 399739004086 putative deacylase active site [active] 399739004087 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 399739004088 active site 399739004089 motif 3; other site 399739004090 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 399739004091 anticodon binding site; other site 399739004092 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 399739004093 CoenzymeA binding site [chemical binding]; other site 399739004094 subunit interaction site [polypeptide binding]; other site 399739004095 PHB binding site; other site 399739004096 outer membrane porin, OprD family; Region: OprD; pfam03573 399739004097 HIT domain; Region: HIT; pfam01230 399739004098 nucleotide binding site/active site [active] 399739004099 HIT family signature motif; other site 399739004100 catalytic residue [active] 399739004101 hypothetical protein; Provisional; Region: PRK00295 399739004102 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 399739004103 DNA-binding site [nucleotide binding]; DNA binding site 399739004104 RNA-binding motif; other site 399739004105 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739004106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739004107 metal binding site [ion binding]; metal-binding site 399739004108 active site 399739004109 I-site; other site 399739004110 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 399739004111 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 399739004112 dimerization interface [polypeptide binding]; other site 399739004113 DPS ferroxidase diiron center [ion binding]; other site 399739004114 ion pore; other site 399739004115 short chain dehydrogenase; Provisional; Region: PRK07832 399739004116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739004117 NAD(P) binding site [chemical binding]; other site 399739004118 active site 399739004119 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 399739004120 putative binding surface; other site 399739004121 active site 399739004122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739004123 Zn2+ binding site [ion binding]; other site 399739004124 Mg2+ binding site [ion binding]; other site 399739004125 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 399739004126 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 399739004127 dimer interface [polypeptide binding]; other site 399739004128 anticodon binding site; other site 399739004129 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 399739004130 homodimer interface [polypeptide binding]; other site 399739004131 motif 1; other site 399739004132 active site 399739004133 motif 2; other site 399739004134 GAD domain; Region: GAD; pfam02938 399739004135 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 399739004136 active site 399739004137 motif 3; other site 399739004138 hypothetical protein; Validated; Region: PRK00110 399739004139 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 399739004140 active site 399739004141 putative DNA-binding cleft [nucleotide binding]; other site 399739004142 dimer interface [polypeptide binding]; other site 399739004143 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 399739004144 RuvA N terminal domain; Region: RuvA_N; pfam01330 399739004145 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 399739004146 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 399739004147 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 399739004148 Walker A motif; other site 399739004149 ATP binding site [chemical binding]; other site 399739004150 Walker B motif; other site 399739004151 arginine finger; other site 399739004152 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 399739004153 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 399739004154 active site 399739004155 TolQ protein; Region: tolQ; TIGR02796 399739004156 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399739004157 TolR protein; Region: tolR; TIGR02801 399739004158 TolA protein; Region: tolA_full; TIGR02794 399739004159 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 399739004160 translocation protein TolB; Provisional; Region: tolB; PRK00178 399739004161 TolB amino-terminal domain; Region: TolB_N; pfam04052 399739004162 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399739004163 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399739004164 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399739004165 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739004166 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004167 ligand binding site [chemical binding]; other site 399739004168 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 399739004169 Tetratricopeptide repeat; Region: TPR_6; pfam13174 399739004170 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 399739004171 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 399739004172 FeS/SAM binding site; other site 399739004173 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 399739004174 Ligand Binding Site [chemical binding]; other site 399739004175 quinolinate synthetase; Provisional; Region: PRK09375 399739004176 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 399739004177 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 399739004178 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 399739004179 Beta-Casp domain; Region: Beta-Casp; smart01027 399739004180 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 399739004181 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 399739004182 XFP N-terminal domain; Region: XFP_N; pfam09364 399739004183 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 399739004184 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 399739004185 Uncharacterized conserved protein [Function unknown]; Region: COG3148 399739004186 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739004187 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 399739004188 active site 399739004189 phosphorylation site [posttranslational modification] 399739004190 intermolecular recognition site; other site 399739004191 dimerization interface [polypeptide binding]; other site 399739004192 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 399739004193 DNA binding residues [nucleotide binding] 399739004194 dimerization interface [polypeptide binding]; other site 399739004195 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 399739004196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004197 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 399739004198 putative dimerization interface [polypeptide binding]; other site 399739004199 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399739004200 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 399739004201 FAD binding pocket [chemical binding]; other site 399739004202 FAD binding motif [chemical binding]; other site 399739004203 phosphate binding motif [ion binding]; other site 399739004204 beta-alpha-beta structure motif; other site 399739004205 NAD binding pocket [chemical binding]; other site 399739004206 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 399739004207 substrate binding site [chemical binding]; other site 399739004208 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 399739004209 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739004210 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 399739004211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739004212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004213 LysR substrate binding domain; Region: LysR_substrate; pfam03466 399739004214 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 399739004215 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739004216 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 399739004217 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 399739004218 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 399739004219 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 399739004220 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004221 ligand binding site [chemical binding]; other site 399739004222 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399739004223 Predicted permeases [General function prediction only]; Region: RarD; COG2962 399739004224 RibD C-terminal domain; Region: RibD_C; cl17279 399739004225 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 399739004226 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 399739004227 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399739004228 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739004229 helicase 45; Provisional; Region: PTZ00424 399739004230 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 399739004231 ATP binding site [chemical binding]; other site 399739004232 Mg++ binding site [ion binding]; other site 399739004233 motif III; other site 399739004234 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 399739004235 nucleotide binding region [chemical binding]; other site 399739004236 ATP-binding site [chemical binding]; other site 399739004237 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 399739004238 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739004239 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 399739004240 Walker A/P-loop; other site 399739004241 ATP binding site [chemical binding]; other site 399739004242 Q-loop/lid; other site 399739004243 ABC transporter signature motif; other site 399739004244 Walker B; other site 399739004245 D-loop; other site 399739004246 H-loop/switch region; other site 399739004247 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 399739004248 hypothetical protein; Provisional; Region: PRK09256 399739004249 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 399739004250 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 399739004251 substrate binding site [chemical binding]; other site 399739004252 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 399739004253 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399739004254 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399739004255 phosphogluconate dehydratase; Validated; Region: PRK09054 399739004256 6-phosphogluconate dehydratase; Region: edd; TIGR01196 399739004257 recombination associated protein; Reviewed; Region: rdgC; PRK00321 399739004258 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399739004259 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399739004260 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739004261 Uncharacterized conserved protein [Function unknown]; Region: COG3339 399739004262 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 399739004263 substrate binding pocket [chemical binding]; other site 399739004264 membrane-bound complex binding site; other site 399739004265 hinge residues; other site 399739004266 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 399739004267 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 399739004268 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399739004269 non-specific DNA binding site [nucleotide binding]; other site 399739004270 salt bridge; other site 399739004271 sequence-specific DNA binding site [nucleotide binding]; other site 399739004272 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 399739004273 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 399739004274 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739004275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739004276 metal binding site [ion binding]; metal-binding site 399739004277 active site 399739004278 I-site; other site 399739004279 carboxy-terminal protease; Provisional; Region: PRK11186 399739004280 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399739004281 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 399739004282 protein binding site [polypeptide binding]; other site 399739004283 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 399739004284 Catalytic dyad [active] 399739004285 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 399739004286 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 399739004287 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 399739004288 NAD(P) binding site [chemical binding]; other site 399739004289 peroxiredoxin; Region: AhpC; TIGR03137 399739004290 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 399739004291 dimer interface [polypeptide binding]; other site 399739004292 decamer (pentamer of dimers) interface [polypeptide binding]; other site 399739004293 catalytic triad [active] 399739004294 peroxidatic and resolving cysteines [active] 399739004295 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 399739004296 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 399739004297 catalytic residue [active] 399739004298 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 399739004299 catalytic residues [active] 399739004300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739004301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739004302 hypothetical protein; Provisional; Region: PRK11171 399739004303 Cupin domain; Region: Cupin_2; pfam07883 399739004304 Cupin domain; Region: Cupin_2; pfam07883 399739004305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739004306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004307 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 399739004308 dimerization interface [polypeptide binding]; other site 399739004309 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 399739004310 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399739004311 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399739004312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739004313 Walker A/P-loop; other site 399739004314 ATP binding site [chemical binding]; other site 399739004315 Q-loop/lid; other site 399739004316 ABC transporter signature motif; other site 399739004317 Walker B; other site 399739004318 D-loop; other site 399739004319 H-loop/switch region; other site 399739004320 TOBE domain; Region: TOBE_2; pfam08402 399739004321 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739004322 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 399739004323 dimer interface [polypeptide binding]; other site 399739004324 conserved gate region; other site 399739004325 putative PBP binding loops; other site 399739004326 ABC-ATPase subunit interface; other site 399739004327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739004328 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 399739004329 dimer interface [polypeptide binding]; other site 399739004330 conserved gate region; other site 399739004331 putative PBP binding loops; other site 399739004332 ABC-ATPase subunit interface; other site 399739004333 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 399739004334 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 399739004335 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 399739004336 transcriptional regulator protein; Region: phnR; TIGR03337 399739004337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739004338 DNA-binding site [nucleotide binding]; DNA binding site 399739004339 UTRA domain; Region: UTRA; pfam07702 399739004340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 399739004341 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 399739004342 SnoaL-like domain; Region: SnoaL_3; pfam13474 399739004343 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 399739004344 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399739004345 Sel1 repeat; Region: Sel1; cl02723 399739004346 Sel1-like repeats; Region: SEL1; smart00671 399739004347 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 399739004348 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 399739004349 putative active site [active] 399739004350 Zn binding site [ion binding]; other site 399739004351 outer membrane porin, OprD family; Region: OprD; pfam03573 399739004352 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 399739004353 putative substrate binding pocket [chemical binding]; other site 399739004354 trimer interface [polypeptide binding]; other site 399739004355 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 399739004356 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 399739004357 DNA binding residues [nucleotide binding] 399739004358 dimer interface [polypeptide binding]; other site 399739004359 [2Fe-2S] cluster binding site [ion binding]; other site 399739004360 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739004361 Predicted flavoprotein [General function prediction only]; Region: COG0431 399739004362 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 399739004363 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739004364 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 399739004365 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 399739004366 dimer interface [polypeptide binding]; other site 399739004367 active site 399739004368 glycine-pyridoxal phosphate binding site [chemical binding]; other site 399739004369 folate binding site [chemical binding]; other site 399739004370 glycine dehydrogenase; Provisional; Region: PRK05367 399739004371 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 399739004372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739004373 tetramer interface [polypeptide binding]; other site 399739004374 catalytic residue [active] 399739004375 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 399739004376 tetramer interface [polypeptide binding]; other site 399739004377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739004378 catalytic residue [active] 399739004379 glycine cleavage system protein H; Provisional; Region: PRK13380 399739004380 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 399739004381 lipoyl attachment site [posttranslational modification]; other site 399739004382 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 399739004383 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 399739004384 E-class dimer interface [polypeptide binding]; other site 399739004385 P-class dimer interface [polypeptide binding]; other site 399739004386 active site 399739004387 Cu2+ binding site [ion binding]; other site 399739004388 Zn2+ binding site [ion binding]; other site 399739004389 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 399739004390 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399739004391 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 399739004392 Walker A motif; other site 399739004393 ATP binding site [chemical binding]; other site 399739004394 Walker B motif; other site 399739004395 arginine finger; other site 399739004396 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 399739004397 DNA-specific endonuclease I; Provisional; Region: PRK15137 399739004398 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 399739004399 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 399739004400 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 399739004401 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399739004402 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739004403 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399739004404 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739004405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739004406 dimer interface [polypeptide binding]; other site 399739004407 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739004408 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 399739004409 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 399739004410 RNA binding surface [nucleotide binding]; other site 399739004411 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 399739004412 active site 399739004413 uracil binding [chemical binding]; other site 399739004414 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 399739004415 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739004416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739004417 metal binding site [ion binding]; metal-binding site 399739004418 active site 399739004419 I-site; other site 399739004420 urea carboxylase; Region: urea_carbox; TIGR02712 399739004421 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739004422 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739004423 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 399739004424 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 399739004425 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 399739004426 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 399739004427 carboxyltransferase (CT) interaction site; other site 399739004428 biotinylation site [posttranslational modification]; other site 399739004429 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 399739004430 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 399739004431 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 399739004432 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 399739004433 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 399739004434 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 399739004435 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 399739004436 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 399739004437 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 399739004438 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 399739004439 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 399739004440 Walker A/P-loop; other site 399739004441 ATP binding site [chemical binding]; other site 399739004442 Q-loop/lid; other site 399739004443 ABC transporter signature motif; other site 399739004444 Walker B; other site 399739004445 D-loop; other site 399739004446 H-loop/switch region; other site 399739004447 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 399739004448 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 399739004449 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 399739004450 substrate binding pocket [chemical binding]; other site 399739004451 membrane-bound complex binding site; other site 399739004452 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 399739004453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004454 LysR substrate binding domain; Region: LysR_substrate; pfam03466 399739004455 dimerization interface [polypeptide binding]; other site 399739004456 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 399739004457 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739004458 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 399739004459 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399739004460 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 399739004461 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399739004462 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 399739004463 tetramer interface [polypeptide binding]; other site 399739004464 active site 399739004465 Mg2+/Mn2+ binding site [ion binding]; other site 399739004466 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 399739004467 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 399739004468 substrate binding site [chemical binding]; other site 399739004469 oxyanion hole (OAH) forming residues; other site 399739004470 trimer interface [polypeptide binding]; other site 399739004471 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 399739004472 enoyl-CoA hydratase; Provisional; Region: PRK09076 399739004473 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 399739004474 substrate binding site [chemical binding]; other site 399739004475 oxyanion hole (OAH) forming residues; other site 399739004476 trimer interface [polypeptide binding]; other site 399739004477 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739004478 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739004479 active site 399739004480 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 399739004481 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 399739004482 putative ligand binding site [chemical binding]; other site 399739004483 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399739004484 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399739004485 tetrameric interface [polypeptide binding]; other site 399739004486 NAD binding site [chemical binding]; other site 399739004487 catalytic residues [active] 399739004488 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739004489 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739004490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739004491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739004492 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 399739004493 CoenzymeA binding site [chemical binding]; other site 399739004494 subunit interaction site [polypeptide binding]; other site 399739004495 PHB binding site; other site 399739004496 HDOD domain; Region: HDOD; pfam08668 399739004497 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 399739004498 ligand binding site [chemical binding]; other site 399739004499 active site 399739004500 UGI interface [polypeptide binding]; other site 399739004501 catalytic site [active] 399739004502 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 399739004503 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 399739004504 Walker A/P-loop; other site 399739004505 ATP binding site [chemical binding]; other site 399739004506 Q-loop/lid; other site 399739004507 ABC transporter signature motif; other site 399739004508 Walker B; other site 399739004509 D-loop; other site 399739004510 H-loop/switch region; other site 399739004511 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 399739004512 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 399739004513 Walker A/P-loop; other site 399739004514 ATP binding site [chemical binding]; other site 399739004515 Q-loop/lid; other site 399739004516 ABC transporter signature motif; other site 399739004517 Walker B; other site 399739004518 D-loop; other site 399739004519 H-loop/switch region; other site 399739004520 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 399739004521 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 399739004522 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 399739004523 TM-ABC transporter signature motif; other site 399739004524 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 399739004525 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 399739004526 TM-ABC transporter signature motif; other site 399739004527 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 399739004528 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 399739004529 dimerization interface [polypeptide binding]; other site 399739004530 ligand binding site [chemical binding]; other site 399739004531 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 399739004532 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 399739004533 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 399739004534 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 399739004535 dimer interface [polypeptide binding]; other site 399739004536 catalytic site [active] 399739004537 putative active site [active] 399739004538 putative substrate binding site [chemical binding]; other site 399739004539 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 399739004540 active site 399739004541 substrate binding pocket [chemical binding]; other site 399739004542 dimer interface [polypeptide binding]; other site 399739004543 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739004544 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004545 ligand binding site [chemical binding]; other site 399739004546 argininosuccinate synthase; Provisional; Region: PRK13820 399739004547 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 399739004548 ANP binding site [chemical binding]; other site 399739004549 Substrate Binding Site II [chemical binding]; other site 399739004550 Substrate Binding Site I [chemical binding]; other site 399739004551 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739004552 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 399739004553 dimer interface [polypeptide binding]; other site 399739004554 active site 399739004555 metal binding site [ion binding]; metal-binding site 399739004556 glutathione binding site [chemical binding]; other site 399739004557 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399739004558 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 399739004559 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739004560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739004561 metal binding site [ion binding]; metal-binding site 399739004562 active site 399739004563 I-site; other site 399739004564 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 399739004565 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399739004566 minor groove reading motif; other site 399739004567 helix-hairpin-helix signature motif; other site 399739004568 substrate binding pocket [chemical binding]; other site 399739004569 active site 399739004570 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 399739004571 electron transport complex RsxE subunit; Provisional; Region: PRK12405 399739004572 FMN-binding domain; Region: FMN_bind; cl01081 399739004573 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 399739004574 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 399739004575 SLBB domain; Region: SLBB; pfam10531 399739004576 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 399739004577 Herpesvirus UL25 family; Region: Herpes_UL25; pfam01499 399739004578 ferredoxin; Provisional; Region: PRK08764 399739004579 Putative Fe-S cluster; Region: FeS; pfam04060 399739004580 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 399739004581 electron transport complex protein RsxA; Provisional; Region: PRK05151 399739004582 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 399739004583 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 399739004584 active site 399739004585 HIGH motif; other site 399739004586 KMSKS motif; other site 399739004587 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 399739004588 tRNA binding surface [nucleotide binding]; other site 399739004589 anticodon binding site; other site 399739004590 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 399739004591 dimer interface [polypeptide binding]; other site 399739004592 putative tRNA-binding site [nucleotide binding]; other site 399739004593 antiporter inner membrane protein; Provisional; Region: PRK11670 399739004594 Domain of unknown function DUF59; Region: DUF59; pfam01883 399739004595 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 399739004596 Walker A motif; other site 399739004597 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 399739004598 DNA-binding site [nucleotide binding]; DNA binding site 399739004599 RNA-binding motif; other site 399739004600 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 399739004601 trimer interface [polypeptide binding]; other site 399739004602 active site 399739004603 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 399739004604 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 399739004605 homodimer interface [polypeptide binding]; other site 399739004606 NAD binding pocket [chemical binding]; other site 399739004607 ATP binding pocket [chemical binding]; other site 399739004608 Mg binding site [ion binding]; other site 399739004609 active-site loop [active] 399739004610 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 399739004611 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 399739004612 active site 399739004613 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 399739004614 Isochorismatase family; Region: Isochorismatase; pfam00857 399739004615 catalytic triad [active] 399739004616 metal binding site [ion binding]; metal-binding site 399739004617 conserved cis-peptide bond; other site 399739004618 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 399739004619 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 399739004620 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 399739004621 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 399739004622 active site 399739004623 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 399739004624 SEC-C motif; Region: SEC-C; pfam02810 399739004625 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 399739004626 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 399739004627 hypothetical protein; Provisional; Region: PRK00183 399739004628 SEC-C motif; Region: SEC-C; pfam02810 399739004629 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004630 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739004631 ligand binding site [chemical binding]; other site 399739004632 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739004633 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004634 ligand binding site [chemical binding]; other site 399739004635 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 399739004636 Predicted integral membrane protein [Function unknown]; Region: COG5615 399739004637 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 399739004638 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 399739004639 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 399739004640 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 399739004641 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 399739004642 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739004643 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 399739004644 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 399739004645 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739004646 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 399739004647 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 399739004648 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 399739004649 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 399739004650 Beta-lactamase; Region: Beta-lactamase; pfam00144 399739004651 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739004652 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739004653 ligand binding site [chemical binding]; other site 399739004654 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 399739004655 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 399739004656 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 399739004657 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 399739004658 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 399739004659 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 399739004660 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 399739004661 fructuronate transporter; Provisional; Region: PRK10034; cl15264 399739004662 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 399739004663 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 399739004664 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 399739004665 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739004666 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 399739004667 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 399739004668 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 399739004669 Multicomponent K+:H+antiporter; Region: 2a6301s04; TIGR00944 399739004670 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739004671 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 399739004672 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 399739004673 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 399739004674 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399739004675 EamA-like transporter family; Region: EamA; pfam00892 399739004676 EamA-like transporter family; Region: EamA; pfam00892 399739004677 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399739004678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399739004679 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 399739004680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739004681 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 399739004682 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399739004683 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399739004684 Predicted membrane protein [Function unknown]; Region: COG3650 399739004685 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 399739004686 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 399739004687 probable active site [active] 399739004688 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 399739004689 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 399739004690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 399739004691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 399739004692 outer membrane porin, OprD family; Region: OprD; pfam03573 399739004693 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 399739004694 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 399739004695 active site 399739004696 phosphorylation site [posttranslational modification] 399739004697 intermolecular recognition site; other site 399739004698 dimerization interface [polypeptide binding]; other site 399739004699 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 399739004700 DNA binding site [nucleotide binding] 399739004701 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 399739004702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739004703 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 399739004704 dimer interface [polypeptide binding]; other site 399739004705 phosphorylation site [posttranslational modification] 399739004706 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 399739004707 ATP binding site [chemical binding]; other site 399739004708 G-X-G motif; other site 399739004709 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 399739004710 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739004711 substrate binding pocket [chemical binding]; other site 399739004712 membrane-bound complex binding site; other site 399739004713 hinge residues; other site 399739004714 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 399739004715 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 399739004716 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 399739004717 Uncharacterized conserved protein [Function unknown]; Region: COG2938 399739004718 L-aspartate oxidase; Provisional; Region: PRK09077 399739004719 L-aspartate oxidase; Provisional; Region: PRK06175 399739004720 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399739004721 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 399739004722 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739004723 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 399739004724 DNA binding residues [nucleotide binding] 399739004725 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 399739004726 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 399739004727 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 399739004728 MucB/RseB family; Region: MucB_RseB; pfam03888 399739004729 anti-sigma E factor; Provisional; Region: rseB; PRK09455 399739004730 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 399739004731 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 399739004732 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399739004733 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 399739004734 protein binding site [polypeptide binding]; other site 399739004735 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 399739004736 protein binding site [polypeptide binding]; other site 399739004737 GTP-binding protein LepA; Provisional; Region: PRK05433 399739004738 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 399739004739 G1 box; other site 399739004740 putative GEF interaction site [polypeptide binding]; other site 399739004741 GTP/Mg2+ binding site [chemical binding]; other site 399739004742 Switch I region; other site 399739004743 G2 box; other site 399739004744 G3 box; other site 399739004745 Switch II region; other site 399739004746 G4 box; other site 399739004747 G5 box; other site 399739004748 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 399739004749 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 399739004750 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 399739004751 signal peptidase I; Provisional; Region: PRK10861 399739004752 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 399739004753 Catalytic site [active] 399739004754 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 399739004755 ribonuclease III; Reviewed; Region: rnc; PRK00102 399739004756 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 399739004757 dimerization interface [polypeptide binding]; other site 399739004758 active site 399739004759 metal binding site [ion binding]; metal-binding site 399739004760 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 399739004761 dsRNA binding site [nucleotide binding]; other site 399739004762 GTPase Era; Reviewed; Region: era; PRK00089 399739004763 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 399739004764 G1 box; other site 399739004765 GTP/Mg2+ binding site [chemical binding]; other site 399739004766 Switch I region; other site 399739004767 G2 box; other site 399739004768 Switch II region; other site 399739004769 G3 box; other site 399739004770 G4 box; other site 399739004771 G5 box; other site 399739004772 KH domain; Region: KH_2; pfam07650 399739004773 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 399739004774 Recombination protein O N terminal; Region: RecO_N; pfam11967 399739004775 Recombination protein O C terminal; Region: RecO_C; pfam02565 399739004776 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 399739004777 active site 399739004778 hydrophilic channel; other site 399739004779 dimerization interface [polypeptide binding]; other site 399739004780 catalytic residues [active] 399739004781 active site lid [active] 399739004782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739004783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004784 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 399739004785 dimerization interface [polypeptide binding]; other site 399739004786 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399739004787 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 399739004788 S-adenosylmethionine binding site [chemical binding]; other site 399739004789 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 399739004790 S-adenosylmethionine binding site [chemical binding]; other site 399739004791 YhhN-like protein; Region: YhhN; pfam07947 399739004792 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 399739004793 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739004794 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 399739004795 ATP-dependent helicase HepA; Validated; Region: PRK04914 399739004796 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 399739004797 ATP binding site [chemical binding]; other site 399739004798 putative Mg++ binding site [ion binding]; other site 399739004799 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 399739004800 nucleotide binding region [chemical binding]; other site 399739004801 ATP-binding site [chemical binding]; other site 399739004802 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 399739004803 Fusaric acid resistance protein family; Region: FUSC; pfam04632 399739004804 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 399739004805 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 399739004806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739004807 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739004808 (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 399739004809 dimer interaction site [polypeptide binding]; other site 399739004810 substrate-binding tunnel; other site 399739004811 active site 399739004812 catalytic site [active] 399739004813 substrate binding site [chemical binding]; other site 399739004814 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 399739004815 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739004816 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739004817 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 399739004818 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 399739004819 acyl-activating enzyme (AAE) consensus motif; other site 399739004820 putative AMP binding site [chemical binding]; other site 399739004821 putative active site [active] 399739004822 putative CoA binding site [chemical binding]; other site 399739004823 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 399739004824 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 399739004825 acyl-activating enzyme (AAE) consensus motif; other site 399739004826 putative AMP binding site [chemical binding]; other site 399739004827 putative active site [active] 399739004828 putative CoA binding site [chemical binding]; other site 399739004829 putative cyanate transporter; Provisional; Region: cynX; PRK09705 399739004830 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 399739004831 MarR family; Region: MarR_2; cl17246 399739004832 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399739004833 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 399739004834 dimerization interface [polypeptide binding]; other site 399739004835 putative DNA binding site [nucleotide binding]; other site 399739004836 putative Zn2+ binding site [ion binding]; other site 399739004837 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 399739004838 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 399739004839 putative NAD(P) binding site [chemical binding]; other site 399739004840 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 399739004841 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739004842 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 399739004843 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 399739004844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739004845 putative substrate translocation pore; other site 399739004846 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 399739004847 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 399739004848 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 399739004849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739004850 NAD(P) binding site [chemical binding]; other site 399739004851 active site 399739004852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739004853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004854 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 399739004855 putative effector binding pocket; other site 399739004856 dimerization interface [polypeptide binding]; other site 399739004857 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 399739004858 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 399739004859 ATP binding site [chemical binding]; other site 399739004860 putative Mg++ binding site [ion binding]; other site 399739004861 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 399739004862 nucleotide binding region [chemical binding]; other site 399739004863 ATP-binding site [chemical binding]; other site 399739004864 Helicase associated domain (HA2); Region: HA2; pfam04408 399739004865 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 399739004866 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 399739004867 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 399739004868 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739004869 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 399739004870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739004871 DNA-binding site [nucleotide binding]; DNA binding site 399739004872 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 399739004873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739004874 homodimer interface [polypeptide binding]; other site 399739004875 catalytic residue [active] 399739004876 Putative amidotransferase; Region: DUF4066; pfam13278 399739004877 conserved cys residue [active] 399739004878 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 399739004879 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 399739004880 arsenical-resistance protein; Region: acr3; TIGR00832 399739004881 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 399739004882 Low molecular weight phosphatase family; Region: LMWPc; cd00115 399739004883 active site 399739004884 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 399739004885 dimerization interface [polypeptide binding]; other site 399739004886 putative DNA binding site [nucleotide binding]; other site 399739004887 putative Zn2+ binding site [ion binding]; other site 399739004888 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 399739004889 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739004890 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 399739004891 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 399739004892 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399739004893 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399739004894 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739004895 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 399739004896 Citrate transporter; Region: CitMHS; pfam03600 399739004897 Predicted periplasmic protein [Function unknown]; Region: COG3904 399739004898 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 399739004899 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 399739004900 putative substrate translocation pore; other site 399739004901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739004902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739004903 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 399739004904 putative effector binding pocket; other site 399739004905 putative dimerization interface [polypeptide binding]; other site 399739004906 short chain dehydrogenase; Provisional; Region: PRK06197 399739004907 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 399739004908 putative NAD(P) binding site [chemical binding]; other site 399739004909 active site 399739004910 TLC ATP/ADP transporter; Region: TLC; cl03940 399739004911 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739004912 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 399739004913 C-terminal domain interface [polypeptide binding]; other site 399739004914 GSH binding site (G-site) [chemical binding]; other site 399739004915 dimer interface [polypeptide binding]; other site 399739004916 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 399739004917 dimer interface [polypeptide binding]; other site 399739004918 N-terminal domain interface [polypeptide binding]; other site 399739004919 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 399739004920 HIT family signature motif; other site 399739004921 catalytic residue [active] 399739004922 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739004923 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 399739004924 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 399739004925 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 399739004926 Uncharacterized protein conserved in bacteria (DUF2247); Region: DUF2247; pfam10004 399739004927 Protein of unknown function, DUF607; Region: DUF607; pfam04678 399739004928 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 399739004929 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 399739004930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739004931 active site 399739004932 nucleotide binding site [chemical binding]; other site 399739004933 HIGH motif; other site 399739004934 KMSKS motif; other site 399739004935 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 399739004936 AAA domain; Region: AAA_28; pfam13521 399739004937 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 399739004938 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 399739004939 substrate binding pocket [chemical binding]; other site 399739004940 membrane-bound complex binding site; other site 399739004941 hinge residues; other site 399739004942 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 399739004943 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 399739004944 active site 399739004945 FMN binding site [chemical binding]; other site 399739004946 substrate binding site [chemical binding]; other site 399739004947 3Fe-4S cluster binding site [ion binding]; other site 399739004948 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 399739004949 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 399739004950 dimer interface [polypeptide binding]; other site 399739004951 active site 399739004952 CoA binding pocket [chemical binding]; other site 399739004953 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 399739004954 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739004955 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 399739004956 DNA binding residues [nucleotide binding] 399739004957 Putative zinc-finger; Region: zf-HC2; pfam13490 399739004958 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739004959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739004960 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739004961 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739004962 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739004963 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739004964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739004965 hypothetical protein; Provisional; Region: PRK05409 399739004966 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 399739004967 Predicted membrane protein [Function unknown]; Region: COG2259 399739004968 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739004969 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739004970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739004971 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 399739004972 FAD binding domain; Region: FAD_binding_4; pfam01565 399739004973 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 399739004974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739004975 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 399739004976 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 399739004977 putative N- and C-terminal domain interface [polypeptide binding]; other site 399739004978 putative active site [active] 399739004979 MgATP binding site [chemical binding]; other site 399739004980 catalytic site [active] 399739004981 metal binding site [ion binding]; metal-binding site 399739004982 putative carbohydrate binding site [chemical binding]; other site 399739004983 Pirin-related protein [General function prediction only]; Region: COG1741 399739004984 Pirin; Region: Pirin; pfam02678 399739004985 lipid kinase; Reviewed; Region: PRK13054 399739004986 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 399739004987 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739004988 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 399739004989 active site 399739004990 phosphorylation site [posttranslational modification] 399739004991 intermolecular recognition site; other site 399739004992 dimerization interface [polypeptide binding]; other site 399739004993 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 399739004994 DNA binding residues [nucleotide binding] 399739004995 dimerization interface [polypeptide binding]; other site 399739004996 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 399739004997 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 399739004998 active site 399739004999 phosphorylation site [posttranslational modification] 399739005000 intermolecular recognition site; other site 399739005001 CheB methylesterase; Region: CheB_methylest; pfam01339 399739005002 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 399739005003 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 399739005004 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399739005005 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399739005006 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739005007 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 399739005008 dimerization interface [polypeptide binding]; other site 399739005009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739005010 dimer interface [polypeptide binding]; other site 399739005011 putative CheW interface [polypeptide binding]; other site 399739005012 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 399739005013 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 399739005014 putative binding surface; other site 399739005015 active site 399739005016 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 399739005017 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 399739005018 ATP binding site [chemical binding]; other site 399739005019 Mg2+ binding site [ion binding]; other site 399739005020 G-X-G motif; other site 399739005021 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 399739005022 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739005023 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 399739005024 active site 399739005025 phosphorylation site [posttranslational modification] 399739005026 intermolecular recognition site; other site 399739005027 dimerization interface [polypeptide binding]; other site 399739005028 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739005029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739005030 dimer interface [polypeptide binding]; other site 399739005031 putative CheW interface [polypeptide binding]; other site 399739005032 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399739005033 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739005034 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 399739005035 active site 399739005036 phosphorylation site [posttranslational modification] 399739005037 intermolecular recognition site; other site 399739005038 dimerization interface [polypeptide binding]; other site 399739005039 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 399739005040 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 399739005041 MOSC domain; Region: MOSC; pfam03473 399739005042 Holliday junction regulator protein family C-terminal repeat; Region: HJURP_C; pfam12347 399739005043 lytic murein transglycosylase; Provisional; Region: PRK11619 399739005044 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 399739005045 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739005046 catalytic residue [active] 399739005047 ABC transporter ATPase component; Reviewed; Region: PRK11147 399739005048 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739005049 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739005050 ABC transporter; Region: ABC_tran_2; pfam12848 399739005051 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739005052 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 399739005053 Ligand Binding Site [chemical binding]; other site 399739005054 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 399739005055 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 399739005056 substrate binding site [chemical binding]; other site 399739005057 oxyanion hole (OAH) forming residues; other site 399739005058 trimer interface [polypeptide binding]; other site 399739005059 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399739005060 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399739005061 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 399739005062 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 399739005063 dimer interface [polypeptide binding]; other site 399739005064 active site 399739005065 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 399739005066 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 399739005067 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 399739005068 active site 399739005069 interdomain interaction site; other site 399739005070 putative metal-binding site [ion binding]; other site 399739005071 nucleotide binding site [chemical binding]; other site 399739005072 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 399739005073 domain I; other site 399739005074 DNA binding groove [nucleotide binding] 399739005075 phosphate binding site [ion binding]; other site 399739005076 domain II; other site 399739005077 domain III; other site 399739005078 nucleotide binding site [chemical binding]; other site 399739005079 catalytic site [active] 399739005080 domain IV; other site 399739005081 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399739005082 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399739005083 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 399739005084 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 399739005085 Cell division inhibitor SulA; Region: SulA; cl01880 399739005086 LexA repressor; Validated; Region: PRK00215 399739005087 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 399739005088 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 399739005089 Catalytic site [active] 399739005090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739005091 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739005092 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399739005093 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 399739005094 beta-hexosaminidase; Provisional; Region: PRK05337 399739005095 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 399739005096 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 399739005097 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 399739005098 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 399739005099 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 399739005100 ATP binding site [chemical binding]; other site 399739005101 putative Mg++ binding site [ion binding]; other site 399739005102 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 399739005103 nucleotide binding region [chemical binding]; other site 399739005104 ATP-binding site [chemical binding]; other site 399739005105 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 399739005106 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 399739005107 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399739005108 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399739005109 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 399739005110 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 399739005111 E3 interaction surface; other site 399739005112 lipoyl attachment site [posttranslational modification]; other site 399739005113 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 399739005114 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 399739005115 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 399739005116 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 399739005117 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 399739005118 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 399739005119 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 399739005120 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 399739005121 catalytic loop [active] 399739005122 iron binding site [ion binding]; other site 399739005123 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 399739005124 FAD binding pocket [chemical binding]; other site 399739005125 FAD binding motif [chemical binding]; other site 399739005126 phosphate binding motif [ion binding]; other site 399739005127 beta-alpha-beta structure motif; other site 399739005128 NAD binding pocket [chemical binding]; other site 399739005129 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 399739005130 ApbE family; Region: ApbE; pfam02424 399739005131 Protein of unknown function (DUF539); Region: DUF539; cl01129 399739005132 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 399739005133 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739005134 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399739005135 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 399739005136 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 399739005137 active site 399739005138 catalytic site [active] 399739005139 metal binding site [ion binding]; metal-binding site 399739005140 PilZ domain; Region: PilZ; pfam07238 399739005141 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 399739005142 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399739005143 FtsX-like permease family; Region: FtsX; pfam02687 399739005144 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 399739005145 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399739005146 Walker A/P-loop; other site 399739005147 ATP binding site [chemical binding]; other site 399739005148 Q-loop/lid; other site 399739005149 ABC transporter signature motif; other site 399739005150 Walker B; other site 399739005151 D-loop; other site 399739005152 H-loop/switch region; other site 399739005153 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 399739005154 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399739005155 FtsX-like permease family; Region: FtsX; pfam02687 399739005156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 399739005157 ComEC family competence protein; Provisional; Region: PRK11539 399739005158 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 399739005159 Competence protein; Region: Competence; pfam03772 399739005160 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 399739005161 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 399739005162 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399739005163 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 399739005164 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 399739005165 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 399739005166 Uncharacterized conserved protein [Function unknown]; Region: COG2835 399739005167 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 399739005168 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 399739005169 Ligand binding site; other site 399739005170 oligomer interface; other site 399739005171 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 399739005172 Low molecular weight phosphatase family; Region: LMWPc; cd00115 399739005173 active site 399739005174 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 399739005175 FAD binding domain; Region: FAD_binding_4; pfam01565 399739005176 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 399739005177 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 399739005178 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 399739005179 homodimer interface [polypeptide binding]; other site 399739005180 oligonucleotide binding site [chemical binding]; other site 399739005181 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 399739005182 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 399739005183 RNA binding surface [nucleotide binding]; other site 399739005184 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399739005185 active site 399739005186 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 399739005187 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 399739005188 motif II; other site 399739005189 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 399739005190 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 399739005191 tandem repeat interface [polypeptide binding]; other site 399739005192 oligomer interface [polypeptide binding]; other site 399739005193 active site residues [active] 399739005194 Maf-like protein; Region: Maf; pfam02545 399739005195 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 399739005196 active site 399739005197 dimer interface [polypeptide binding]; other site 399739005198 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 399739005199 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 399739005200 putative phosphate acyltransferase; Provisional; Region: PRK05331 399739005201 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 399739005202 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 399739005203 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 399739005204 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 399739005205 NAD(P) binding site [chemical binding]; other site 399739005206 homotetramer interface [polypeptide binding]; other site 399739005207 homodimer interface [polypeptide binding]; other site 399739005208 active site 399739005209 acyl carrier protein; Provisional; Region: acpP; PRK00982 399739005210 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 399739005211 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 399739005212 dimer interface [polypeptide binding]; other site 399739005213 active site 399739005214 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 399739005215 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 399739005216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005217 catalytic residue [active] 399739005218 YceG-like family; Region: YceG; pfam02618 399739005219 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 399739005220 dimerization interface [polypeptide binding]; other site 399739005221 thymidylate kinase; Validated; Region: tmk; PRK00698 399739005222 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 399739005223 TMP-binding site; other site 399739005224 ATP-binding site [chemical binding]; other site 399739005225 DNA polymerase III subunit delta'; Validated; Region: PRK05707 399739005226 Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilZ; COG3215 399739005227 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399739005228 active site 399739005229 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 399739005230 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 399739005231 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739005232 catalytic residue [active] 399739005233 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739005234 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739005235 WHG domain; Region: WHG; pfam13305 399739005236 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 399739005237 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 399739005238 FeS/SAM binding site; other site 399739005239 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 399739005240 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 399739005241 Radical SAM superfamily; Region: Radical_SAM; pfam04055 399739005242 FeS/SAM binding site; other site 399739005243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 399739005244 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 399739005245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399739005246 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 399739005247 active site 399739005248 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 399739005249 active site 399739005250 catalytic residues [active] 399739005251 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 399739005252 PAS fold; Region: PAS_3; pfam08447 399739005253 putative active site [active] 399739005254 heme pocket [chemical binding]; other site 399739005255 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 399739005256 PAS fold; Region: PAS_3; pfam08447 399739005257 putative active site [active] 399739005258 heme pocket [chemical binding]; other site 399739005259 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739005260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739005261 metal binding site [ion binding]; metal-binding site 399739005262 active site 399739005263 I-site; other site 399739005264 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 399739005265 intracellular protease, PfpI family; Region: PfpI; TIGR01382 399739005266 proposed catalytic triad [active] 399739005267 conserved cys residue [active] 399739005268 Cupin; Region: Cupin_6; pfam12852 399739005269 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739005270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739005271 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 399739005272 classical (c) SDRs; Region: SDR_c; cd05233 399739005273 NAD(P) binding site [chemical binding]; other site 399739005274 active site 399739005275 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 399739005276 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399739005277 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 399739005278 S-adenosylmethionine binding site [chemical binding]; other site 399739005279 Uncharacterized conserved protein [Function unknown]; Region: COG3791 399739005280 amidase; Validated; Region: PRK06565 399739005281 Amidase; Region: Amidase; cl11426 399739005282 Amidase; Region: Amidase; cl11426 399739005283 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 399739005284 Peptidase family M48; Region: Peptidase_M48; cl12018 399739005285 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 399739005286 CPxP motif; other site 399739005287 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 399739005288 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399739005289 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 399739005290 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 399739005291 catalytic triad [active] 399739005292 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 399739005293 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399739005294 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 399739005295 dihydrodipicolinate synthase; Region: dapA; TIGR00674 399739005296 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 399739005297 dimer interface [polypeptide binding]; other site 399739005298 active site 399739005299 catalytic residue [active] 399739005300 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 399739005301 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 399739005302 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 399739005303 ATP binding site [chemical binding]; other site 399739005304 active site 399739005305 substrate binding site [chemical binding]; other site 399739005306 Alginate lyase; Region: Alginate_lyase2; pfam08787 399739005307 Right handed beta helix region; Region: Beta_helix; pfam13229 399739005308 Right handed beta helix region; Region: Beta_helix; pfam13229 399739005309 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 399739005310 active site 399739005311 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 399739005312 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 399739005313 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399739005314 PilZ domain; Region: PilZ; pfam07238 399739005315 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399739005316 active site 399739005317 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 399739005318 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 399739005319 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 399739005320 Substrate binding site; other site 399739005321 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 399739005322 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 399739005323 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399739005324 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399739005325 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 399739005326 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399739005327 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739005328 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739005329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739005330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739005331 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 399739005332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739005333 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 399739005334 putative dimerization interface [polypeptide binding]; other site 399739005335 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 399739005336 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 399739005337 THF binding site; other site 399739005338 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 399739005339 substrate binding site [chemical binding]; other site 399739005340 THF binding site; other site 399739005341 zinc-binding site [ion binding]; other site 399739005342 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 399739005343 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399739005344 EamA-like transporter family; Region: EamA; pfam00892 399739005345 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 399739005346 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739005347 fumarate hydratase; Provisional; Region: PRK12425 399739005348 Class II fumarases; Region: Fumarase_classII; cd01362 399739005349 active site 399739005350 tetramer interface [polypeptide binding]; other site 399739005351 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 399739005352 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 399739005353 BolA-like protein; Region: BolA; pfam01722 399739005354 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 399739005355 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 399739005356 active site residue [active] 399739005357 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 399739005358 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 399739005359 catalytic residues [active] 399739005360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739005361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739005362 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 399739005363 Walker A/P-loop; other site 399739005364 ATP binding site [chemical binding]; other site 399739005365 Q-loop/lid; other site 399739005366 ABC transporter signature motif; other site 399739005367 Walker B; other site 399739005368 D-loop; other site 399739005369 H-loop/switch region; other site 399739005370 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 399739005371 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 399739005372 dimer interface [polypeptide binding]; other site 399739005373 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 399739005374 active site 399739005375 Fe binding site [ion binding]; other site 399739005376 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 399739005377 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 399739005378 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 399739005379 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 399739005380 maleylacetoacetate isomerase; Region: maiA; TIGR01262 399739005381 C-terminal domain interface [polypeptide binding]; other site 399739005382 GSH binding site (G-site) [chemical binding]; other site 399739005383 putative dimer interface [polypeptide binding]; other site 399739005384 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 399739005385 dimer interface [polypeptide binding]; other site 399739005386 N-terminal domain interface [polypeptide binding]; other site 399739005387 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 399739005388 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 399739005389 Na2 binding site [ion binding]; other site 399739005390 putative substrate binding site 1 [chemical binding]; other site 399739005391 Na binding site 1 [ion binding]; other site 399739005392 putative substrate binding site 2 [chemical binding]; other site 399739005393 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 399739005394 dimerization interface [polypeptide binding]; other site 399739005395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739005396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739005397 dimer interface [polypeptide binding]; other site 399739005398 putative CheW interface [polypeptide binding]; other site 399739005399 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 399739005400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739005401 active site 399739005402 metal binding site [ion binding]; metal-binding site 399739005403 Uncharacterized conserved protein [Function unknown]; Region: COG1359 399739005404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739005405 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 399739005406 NAD(P) binding site [chemical binding]; other site 399739005407 active site 399739005408 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 399739005409 homodimer interaction site [polypeptide binding]; other site 399739005410 cofactor binding site; other site 399739005411 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 399739005412 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 399739005413 RNA binding surface [nucleotide binding]; other site 399739005414 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 399739005415 active site 399739005416 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739005417 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 399739005418 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 399739005419 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 399739005420 active site 399739005421 homodimer interface [polypeptide binding]; other site 399739005422 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 399739005423 active site 399739005424 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 399739005425 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399739005426 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 399739005427 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 399739005428 hypothetical protein; Provisional; Region: PRK09936 399739005429 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 399739005430 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 399739005431 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 399739005432 FeS/SAM binding site; other site 399739005433 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 399739005434 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 399739005435 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739005436 Uncharacterized conserved protein [Function unknown]; Region: COG5361 399739005437 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 399739005438 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 399739005439 Domain of unknown function (DUF202); Region: DUF202; pfam02656 399739005440 Domain of unknown function (DUF202); Region: DUF202; cl09954 399739005441 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739005442 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739005443 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739005444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739005445 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 399739005446 putative dimerization interface [polypeptide binding]; other site 399739005447 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 399739005448 D-galactonate transporter; Region: 2A0114; TIGR00893 399739005449 putative substrate translocation pore; other site 399739005450 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739005451 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 399739005452 active site 399739005453 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 399739005454 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399739005455 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 399739005456 acyl-activating enzyme (AAE) consensus motif; other site 399739005457 acyl-activating enzyme (AAE) consensus motif; other site 399739005458 putative AMP binding site [chemical binding]; other site 399739005459 putative active site [active] 399739005460 putative CoA binding site [chemical binding]; other site 399739005461 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 399739005462 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 399739005463 dimer interface [polypeptide binding]; other site 399739005464 active site 399739005465 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 399739005466 active site 399739005467 DNA polymerase IV; Validated; Region: PRK02406 399739005468 DNA binding site [nucleotide binding] 399739005469 META domain; Region: META; pfam03724 399739005470 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 399739005471 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 399739005472 putative ligand binding site [chemical binding]; other site 399739005473 putative NAD binding site [chemical binding]; other site 399739005474 catalytic site [active] 399739005475 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 399739005476 dimerization interface [polypeptide binding]; other site 399739005477 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 399739005478 dimer interface [polypeptide binding]; other site 399739005479 phosphorylation site [posttranslational modification] 399739005480 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 399739005481 ATP binding site [chemical binding]; other site 399739005482 Mg2+ binding site [ion binding]; other site 399739005483 G-X-G motif; other site 399739005484 Response regulator receiver domain; Region: Response_reg; pfam00072 399739005485 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 399739005486 active site 399739005487 phosphorylation site [posttranslational modification] 399739005488 intermolecular recognition site; other site 399739005489 dimerization interface [polypeptide binding]; other site 399739005490 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 399739005491 putative binding surface; other site 399739005492 active site 399739005493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739005494 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 399739005495 active site 399739005496 phosphorylation site [posttranslational modification] 399739005497 intermolecular recognition site; other site 399739005498 dimerization interface [polypeptide binding]; other site 399739005499 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 399739005500 DNA binding site [nucleotide binding] 399739005501 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 399739005502 dimerization interface [polypeptide binding]; other site 399739005503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739005504 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 399739005505 dimer interface [polypeptide binding]; other site 399739005506 phosphorylation site [posttranslational modification] 399739005507 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 399739005508 ATP binding site [chemical binding]; other site 399739005509 Mg2+ binding site [ion binding]; other site 399739005510 G-X-G motif; other site 399739005511 cysteine synthase B; Region: cysM; TIGR01138 399739005512 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 399739005513 dimer interface [polypeptide binding]; other site 399739005514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005515 catalytic residue [active] 399739005516 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 399739005517 TRAM domain; Region: TRAM; pfam01938 399739005518 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 399739005519 HD domain; Region: HD_4; pfam13328 399739005520 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 399739005521 synthetase active site [active] 399739005522 NTP binding site [chemical binding]; other site 399739005523 metal binding site [ion binding]; metal-binding site 399739005524 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 399739005525 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 399739005526 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 399739005527 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 399739005528 homodimer interface [polypeptide binding]; other site 399739005529 metal binding site [ion binding]; metal-binding site 399739005530 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 399739005531 homodimer interface [polypeptide binding]; other site 399739005532 active site 399739005533 putative chemical substrate binding site [chemical binding]; other site 399739005534 metal binding site [ion binding]; metal-binding site 399739005535 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 399739005536 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 399739005537 outer membrane porin, OprD family; Region: OprD; pfam03573 399739005538 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 399739005539 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 399739005540 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 399739005541 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 399739005542 GTP binding site; other site 399739005543 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 399739005544 MPT binding site; other site 399739005545 trimer interface [polypeptide binding]; other site 399739005546 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 399739005547 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 399739005548 dimer interface [polypeptide binding]; other site 399739005549 putative functional site; other site 399739005550 putative MPT binding site; other site 399739005551 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 399739005552 NlpC/P60 family; Region: NLPC_P60; pfam00877 399739005553 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 399739005554 NlpC/P60 family; Region: NLPC_P60; pfam00877 399739005555 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 399739005556 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 399739005557 S-adenosylmethionine binding site [chemical binding]; other site 399739005558 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 399739005559 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 399739005560 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 399739005561 Walker A motif; other site 399739005562 homodimer interface [polypeptide binding]; other site 399739005563 ATP binding site [chemical binding]; other site 399739005564 hydroxycobalamin binding site [chemical binding]; other site 399739005565 Walker B motif; other site 399739005566 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 399739005567 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 399739005568 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 399739005569 catalytic triad [active] 399739005570 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 399739005571 putative FMN binding site [chemical binding]; other site 399739005572 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 399739005573 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 399739005574 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 399739005575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005576 homodimer interface [polypeptide binding]; other site 399739005577 catalytic residue [active] 399739005578 cobyric acid synthase; Provisional; Region: PRK00784 399739005579 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 399739005580 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 399739005581 catalytic triad [active] 399739005582 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 399739005583 homotrimer interface [polypeptide binding]; other site 399739005584 Walker A motif; other site 399739005585 GTP binding site [chemical binding]; other site 399739005586 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 399739005587 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 399739005588 putative dimer interface [polypeptide binding]; other site 399739005589 active site pocket [active] 399739005590 putative cataytic base [active] 399739005591 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 399739005592 catalytic core [active] 399739005593 cobalamin synthase; Reviewed; Region: cobS; PRK00235 399739005594 Transcriptional regulators [Transcription]; Region: MarR; COG1846 399739005595 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 399739005596 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 399739005597 catalytic residues [active] 399739005598 dimer interface [polypeptide binding]; other site 399739005599 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 399739005600 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399739005601 lipase chaperone; Provisional; Region: PRK01294 399739005602 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 399739005603 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739005604 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 399739005605 phosphorylation site [posttranslational modification] 399739005606 dimer interface [polypeptide binding]; other site 399739005607 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 399739005608 ATP binding site [chemical binding]; other site 399739005609 G-X-G motif; other site 399739005610 Response regulator receiver domain; Region: Response_reg; pfam00072 399739005611 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 399739005612 active site 399739005613 phosphorylation site [posttranslational modification] 399739005614 intermolecular recognition site; other site 399739005615 dimerization interface [polypeptide binding]; other site 399739005616 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 399739005617 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739005618 active site 399739005619 phosphorylation site [posttranslational modification] 399739005620 intermolecular recognition site; other site 399739005621 dimerization interface [polypeptide binding]; other site 399739005622 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 399739005623 DNA binding residues [nucleotide binding] 399739005624 dimerization interface [polypeptide binding]; other site 399739005625 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 399739005626 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 399739005627 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 399739005628 active site residue [active] 399739005629 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 399739005630 active site residue [active] 399739005631 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739005632 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739005633 putative acyl-acceptor binding pocket; other site 399739005634 glutamate dehydrogenase; Provisional; Region: PRK09414 399739005635 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 399739005636 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 399739005637 NAD(P) binding site [chemical binding]; other site 399739005638 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 399739005639 Strictosidine synthase; Region: Str_synth; pfam03088 399739005640 ribonuclease D; Region: rnd; TIGR01388 399739005641 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 399739005642 catalytic site [active] 399739005643 putative active site [active] 399739005644 putative substrate binding site [chemical binding]; other site 399739005645 HRDC domain; Region: HRDC; pfam00570 399739005646 YcgL domain; Region: YcgL; pfam05166 399739005647 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 399739005648 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 399739005649 NAD binding site [chemical binding]; other site 399739005650 ligand binding site [chemical binding]; other site 399739005651 catalytic site [active] 399739005652 hypothetical protein; Provisional; Region: PRK05170 399739005653 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 399739005654 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 399739005655 active site 399739005656 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399739005657 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 399739005658 ligand binding site [chemical binding]; other site 399739005659 flexible hinge region; other site 399739005660 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 399739005661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739005662 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 399739005663 nucleotide binding site/active site [active] 399739005664 HIT family signature motif; other site 399739005665 catalytic residue [active] 399739005666 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 399739005667 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 399739005668 putative active site [active] 399739005669 putative dimer interface [polypeptide binding]; other site 399739005670 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 399739005671 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 399739005672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 399739005673 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 399739005674 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 399739005675 Walker A motif; other site 399739005676 ATP binding site [chemical binding]; other site 399739005677 Walker B motif; other site 399739005678 arginine finger; other site 399739005679 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399739005680 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 399739005681 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 399739005682 dimer interface [polypeptide binding]; other site 399739005683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005684 catalytic residue [active] 399739005685 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399739005686 EamA-like transporter family; Region: EamA; pfam00892 399739005687 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 399739005688 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 399739005689 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739005690 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 399739005691 hypothetical protein; Provisional; Region: PRK07524 399739005692 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 399739005693 PYR/PP interface [polypeptide binding]; other site 399739005694 dimer interface [polypeptide binding]; other site 399739005695 TPP binding site [chemical binding]; other site 399739005696 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399739005697 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 399739005698 TPP-binding site [chemical binding]; other site 399739005699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 399739005700 Nucleoside recognition; Region: Gate; pfam07670 399739005701 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 399739005702 agmatinase; Region: agmatinase; TIGR01230 399739005703 oligomer interface [polypeptide binding]; other site 399739005704 putative active site [active] 399739005705 Mn binding site [ion binding]; other site 399739005706 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 399739005707 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 399739005708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739005709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739005710 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 399739005711 dimerization interface [polypeptide binding]; other site 399739005712 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 399739005713 PAS domain; Region: PAS_9; pfam13426 399739005714 putative active site [active] 399739005715 heme pocket [chemical binding]; other site 399739005716 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739005717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739005718 dimer interface [polypeptide binding]; other site 399739005719 putative CheW interface [polypeptide binding]; other site 399739005720 Uncharacterized conserved protein [Function unknown]; Region: COG3148 399739005721 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 399739005722 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739005723 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 399739005724 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 399739005725 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739005726 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 399739005727 Walker A/P-loop; other site 399739005728 ATP binding site [chemical binding]; other site 399739005729 Q-loop/lid; other site 399739005730 ABC transporter signature motif; other site 399739005731 Walker B; other site 399739005732 D-loop; other site 399739005733 H-loop/switch region; other site 399739005734 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 399739005735 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005736 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005737 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 399739005738 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005739 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005740 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005741 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 399739005742 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005743 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005744 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399739005745 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 399739005746 metal ion-dependent adhesion site (MIDAS); other site 399739005747 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 399739005748 metal ion-dependent adhesion site (MIDAS); other site 399739005749 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 399739005750 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 399739005751 dimerization interface [polypeptide binding]; other site 399739005752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739005753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739005754 metal binding site [ion binding]; metal-binding site 399739005755 active site 399739005756 I-site; other site 399739005757 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 399739005758 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 399739005759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 399739005760 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 399739005761 yecA family protein; Region: ygfB_yecA; TIGR02292 399739005762 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 399739005763 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 399739005764 ATP binding site [chemical binding]; other site 399739005765 putative Mg++ binding site [ion binding]; other site 399739005766 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 399739005767 nucleotide binding region [chemical binding]; other site 399739005768 ATP-binding site [chemical binding]; other site 399739005769 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 399739005770 HRDC domain; Region: HRDC; pfam00570 399739005771 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739005772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739005773 metal binding site [ion binding]; metal-binding site 399739005774 active site 399739005775 I-site; other site 399739005776 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399739005777 MarR family; Region: MarR_2; pfam12802 399739005778 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739005779 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 399739005780 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 399739005781 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 399739005782 active site 399739005783 nucleophile elbow; other site 399739005784 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739005785 Surface antigen; Region: Bac_surface_Ag; pfam01103 399739005786 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 399739005787 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399739005788 EamA-like transporter family; Region: EamA; pfam00892 399739005789 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 399739005790 dimer interface [polypeptide binding]; other site 399739005791 putative tRNA-binding site [nucleotide binding]; other site 399739005792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739005793 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739005794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739005795 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399739005796 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 399739005797 putative active site [active] 399739005798 putative metal binding site [ion binding]; other site 399739005799 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 399739005800 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 399739005801 MASE2 domain; Region: MASE2; pfam05230 399739005802 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 399739005803 cyclase homology domain; Region: CHD; cd07302 399739005804 nucleotidyl binding site; other site 399739005805 metal binding site [ion binding]; metal-binding site 399739005806 dimer interface [polypeptide binding]; other site 399739005807 Protein of unknown function (DUF962); Region: DUF962; cl01879 399739005808 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739005809 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739005810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739005811 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 399739005812 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 399739005813 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 399739005814 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 399739005815 putative FMN binding site [chemical binding]; other site 399739005816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739005817 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 399739005818 dimerization interface [polypeptide binding]; other site 399739005819 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 399739005820 ATP binding site [chemical binding]; other site 399739005821 G-X-G motif; other site 399739005822 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 399739005823 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739005824 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 399739005825 active site 399739005826 phosphorylation site [posttranslational modification] 399739005827 intermolecular recognition site; other site 399739005828 dimerization interface [polypeptide binding]; other site 399739005829 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 399739005830 DNA binding site [nucleotide binding] 399739005831 YciI-like protein; Reviewed; Region: PRK11370 399739005832 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 399739005833 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 399739005834 active site 399739005835 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 399739005836 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 399739005837 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 399739005838 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 399739005839 active site 399739005840 HIGH motif; other site 399739005841 dimer interface [polypeptide binding]; other site 399739005842 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739005843 active site 399739005844 KMSKS motif; other site 399739005845 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 399739005846 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 399739005847 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 399739005848 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 399739005849 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 399739005850 RNA binding surface [nucleotide binding]; other site 399739005851 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 399739005852 probable active site [active] 399739005853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739005854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739005855 metal binding site [ion binding]; metal-binding site 399739005856 active site 399739005857 I-site; other site 399739005858 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 399739005859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739005860 NAD(P) binding site [chemical binding]; other site 399739005861 active site 399739005862 phosphoglycolate phosphatase; Provisional; Region: PRK13222 399739005863 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 399739005864 motif II; other site 399739005865 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 399739005866 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 399739005867 S-adenosylmethionine binding site [chemical binding]; other site 399739005868 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 399739005869 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 399739005870 active site 399739005871 putative substrate binding pocket [chemical binding]; other site 399739005872 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 399739005873 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 399739005874 DNA gyrase subunit A; Validated; Region: PRK05560 399739005875 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 399739005876 CAP-like domain; other site 399739005877 active site 399739005878 primary dimer interface [polypeptide binding]; other site 399739005879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005882 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005883 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005884 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399739005885 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 399739005886 homodimer interface [polypeptide binding]; other site 399739005887 substrate-cofactor binding pocket; other site 399739005888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005889 catalytic residue [active] 399739005890 Chorismate mutase type II; Region: CM_2; cl00693 399739005891 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 399739005892 Prephenate dehydratase; Region: PDT; pfam00800 399739005893 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 399739005894 putative L-Phe binding site [chemical binding]; other site 399739005895 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 399739005896 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 399739005897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005898 homodimer interface [polypeptide binding]; other site 399739005899 catalytic residue [active] 399739005900 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 399739005901 prephenate dehydrogenase; Validated; Region: PRK08507 399739005902 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 399739005903 hinge; other site 399739005904 active site 399739005905 cytidylate kinase; Provisional; Region: cmk; PRK00023 399739005906 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 399739005907 CMP-binding site; other site 399739005908 The sites determining sugar specificity; other site 399739005909 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 399739005910 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 399739005911 RNA binding site [nucleotide binding]; other site 399739005912 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 399739005913 RNA binding site [nucleotide binding]; other site 399739005914 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 399739005915 RNA binding site [nucleotide binding]; other site 399739005916 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 399739005917 RNA binding site [nucleotide binding]; other site 399739005918 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 399739005919 RNA binding site [nucleotide binding]; other site 399739005920 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 399739005921 RNA binding site [nucleotide binding]; other site 399739005922 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 399739005923 IHF dimer interface [polypeptide binding]; other site 399739005924 IHF - DNA interface [nucleotide binding]; other site 399739005925 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 399739005926 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739005927 Beta-Casp domain; Region: Beta-Casp; smart01027 399739005928 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 399739005929 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 399739005930 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399739005931 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 399739005932 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 399739005933 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 399739005934 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 399739005935 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 399739005936 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 399739005937 putative trimer interface [polypeptide binding]; other site 399739005938 putative active site [active] 399739005939 putative substrate binding site [chemical binding]; other site 399739005940 putative CoA binding site [chemical binding]; other site 399739005941 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 399739005942 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 399739005943 inhibitor-cofactor binding pocket; inhibition site 399739005944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739005945 catalytic residue [active] 399739005946 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 399739005947 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739005948 TrkA-C domain; Region: TrkA_C; pfam02080 399739005949 TrkA-C domain; Region: TrkA_C; pfam02080 399739005950 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 399739005951 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 399739005952 ligand-binding site [chemical binding]; other site 399739005953 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 399739005954 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399739005955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739005956 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739005957 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 399739005958 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 399739005959 active site 399739005960 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 399739005961 putative glycosyl transferase; Provisional; Region: PRK10307 399739005962 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 399739005963 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 399739005964 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 399739005965 NADP binding site [chemical binding]; other site 399739005966 active site 399739005967 putative substrate binding site [chemical binding]; other site 399739005968 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 399739005969 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 399739005970 NAD(P) binding site [chemical binding]; other site 399739005971 homodimer interface [polypeptide binding]; other site 399739005972 substrate binding site [chemical binding]; other site 399739005973 active site 399739005974 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 399739005975 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 399739005976 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 399739005977 active site 399739005978 homodimer interface [polypeptide binding]; other site 399739005979 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739005980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739005981 NAD(P) binding site [chemical binding]; other site 399739005982 active site 399739005983 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 399739005984 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 399739005985 Mg++ binding site [ion binding]; other site 399739005986 putative catalytic motif [active] 399739005987 putative substrate binding site [chemical binding]; other site 399739005988 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 399739005989 putative trimer interface [polypeptide binding]; other site 399739005990 putative CoA binding site [chemical binding]; other site 399739005991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739005992 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739005993 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 399739005994 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 399739005995 NAD(P) binding site [chemical binding]; other site 399739005996 homodimer interface [polypeptide binding]; other site 399739005997 substrate binding site [chemical binding]; other site 399739005998 active site 399739005999 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 399739006000 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 399739006001 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 399739006002 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 399739006003 Tetramer interface [polypeptide binding]; other site 399739006004 active site 399739006005 FMN-binding site [chemical binding]; other site 399739006006 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 399739006007 putative substrate translocation pore; other site 399739006008 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 399739006009 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 399739006010 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 399739006011 catalytic core [active] 399739006012 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 399739006013 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 399739006014 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 399739006015 DNA binding site [nucleotide binding] 399739006016 active site 399739006017 AlkA N-terminal domain; Region: AlkA_N; pfam06029 399739006018 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 399739006019 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399739006020 minor groove reading motif; other site 399739006021 helix-hairpin-helix signature motif; other site 399739006022 substrate binding pocket [chemical binding]; other site 399739006023 active site 399739006024 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739006025 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739006026 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 399739006027 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 399739006028 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 399739006029 short chain dehydrogenase; Provisional; Region: PRK08267 399739006030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739006031 NAD(P) binding site [chemical binding]; other site 399739006032 active site 399739006033 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 399739006034 DinB family; Region: DinB; cl17821 399739006035 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 399739006036 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739006037 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 399739006038 classical (c) SDRs; Region: SDR_c; cd05233 399739006039 NAD(P) binding site [chemical binding]; other site 399739006040 active site 399739006041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739006042 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 399739006043 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 399739006044 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 399739006045 PAS domain; Region: PAS_9; pfam13426 399739006046 putative active site [active] 399739006047 heme pocket [chemical binding]; other site 399739006048 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739006049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739006050 dimer interface [polypeptide binding]; other site 399739006051 putative CheW interface [polypeptide binding]; other site 399739006052 aconitate hydratase; Validated; Region: PRK09277 399739006053 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 399739006054 substrate binding site [chemical binding]; other site 399739006055 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 399739006056 ligand binding site [chemical binding]; other site 399739006057 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 399739006058 substrate binding site [chemical binding]; other site 399739006059 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 399739006060 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 399739006061 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 399739006062 CPxP motif; other site 399739006063 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 399739006064 multidrug efflux protein; Reviewed; Region: PRK01766 399739006065 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 399739006066 cation binding site [ion binding]; other site 399739006067 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 399739006068 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 399739006069 ligand binding site [chemical binding]; other site 399739006070 NAD binding site [chemical binding]; other site 399739006071 catalytic site [active] 399739006072 homodimer interface [polypeptide binding]; other site 399739006073 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 399739006074 catalytic residues [active] 399739006075 dimer interface [polypeptide binding]; other site 399739006076 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399739006077 MarR family; Region: MarR; pfam01047 399739006078 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 399739006079 dimer interface [polypeptide binding]; other site 399739006080 phosphorylation site [posttranslational modification] 399739006081 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 399739006082 ATP binding site [chemical binding]; other site 399739006083 Mg2+ binding site [ion binding]; other site 399739006084 G-X-G motif; other site 399739006085 Response regulator receiver domain; Region: Response_reg; pfam00072 399739006086 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 399739006087 active site 399739006088 phosphorylation site [posttranslational modification] 399739006089 intermolecular recognition site; other site 399739006090 dimerization interface [polypeptide binding]; other site 399739006091 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 399739006092 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 399739006093 Walker A motif; other site 399739006094 ATP binding site [chemical binding]; other site 399739006095 Walker B motif; other site 399739006096 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 399739006097 GAF domain; Region: GAF_2; pfam13185 399739006098 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739006099 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 399739006100 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 399739006101 N-terminal domain interface [polypeptide binding]; other site 399739006102 dimer interface [polypeptide binding]; other site 399739006103 substrate binding pocket (H-site) [chemical binding]; other site 399739006104 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 399739006105 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 399739006106 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 399739006107 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 399739006108 active site 399739006109 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 399739006110 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399739006111 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399739006112 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399739006113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739006114 Walker A/P-loop; other site 399739006115 ATP binding site [chemical binding]; other site 399739006116 Q-loop/lid; other site 399739006117 ABC transporter signature motif; other site 399739006118 Walker B; other site 399739006119 D-loop; other site 399739006120 H-loop/switch region; other site 399739006121 inner membrane transport permease; Provisional; Region: PRK15066 399739006122 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399739006123 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739006124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739006125 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739006126 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399739006127 Protein export membrane protein; Region: SecD_SecF; cl14618 399739006128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 399739006129 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 399739006130 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 399739006131 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 399739006132 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 399739006133 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 399739006134 active site 399739006135 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 399739006136 PilZ domain; Region: PilZ; pfam07238 399739006137 Response regulator receiver domain; Region: Response_reg; pfam00072 399739006138 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 399739006139 active site 399739006140 phosphorylation site [posttranslational modification] 399739006141 intermolecular recognition site; other site 399739006142 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 399739006143 dimerization interface [polypeptide binding]; other site 399739006144 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 399739006145 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 399739006146 anti sigma factor interaction site; other site 399739006147 regulatory phosphorylation site [posttranslational modification]; other site 399739006148 transaldolase-like protein; Provisional; Region: PTZ00411 399739006149 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 399739006150 active site 399739006151 dimer interface [polypeptide binding]; other site 399739006152 catalytic residue [active] 399739006153 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 399739006154 putative DNA binding helix; other site 399739006155 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 399739006156 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 399739006157 FMN binding site [chemical binding]; other site 399739006158 active site 399739006159 catalytic residues [active] 399739006160 substrate binding site [chemical binding]; other site 399739006161 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 399739006162 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 399739006163 putative active site [active] 399739006164 putative PHP Thumb interface [polypeptide binding]; other site 399739006165 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 399739006166 generic binding surface I; other site 399739006167 generic binding surface II; other site 399739006168 DNA Polymerase Y-family; Region: PolY_like; cd03468 399739006169 active site 399739006170 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 399739006171 DNA binding site [nucleotide binding] 399739006172 Uncharacterized conserved protein [Function unknown]; Region: COG4544 399739006173 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399739006174 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399739006175 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399739006176 Gram-negative porin; Region: Porin_4; pfam13609 399739006177 Uncharacterized conserved protein [Function unknown]; Region: COG3287 399739006178 FIST N domain; Region: FIST; pfam08495 399739006179 FIST C domain; Region: FIST_C; pfam10442 399739006180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739006181 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739006182 putative acetyltransferase; Provisional; Region: PRK03624 399739006183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739006184 Coenzyme A binding pocket [chemical binding]; other site 399739006185 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739006186 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 399739006187 active site 399739006188 phosphorylation site [posttranslational modification] 399739006189 intermolecular recognition site; other site 399739006190 dimerization interface [polypeptide binding]; other site 399739006191 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 399739006192 DNA binding residues [nucleotide binding] 399739006193 dimerization interface [polypeptide binding]; other site 399739006194 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 399739006195 active site residue [active] 399739006196 ABC-2 type transporter; Region: ABC2_membrane; cl17235 399739006197 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399739006198 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 399739006199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739006200 Walker A/P-loop; other site 399739006201 ATP binding site [chemical binding]; other site 399739006202 Q-loop/lid; other site 399739006203 ABC transporter signature motif; other site 399739006204 Walker B; other site 399739006205 D-loop; other site 399739006206 H-loop/switch region; other site 399739006207 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 399739006208 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 399739006209 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 399739006210 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 399739006211 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 399739006212 ligand binding site [chemical binding]; other site 399739006213 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 399739006214 dimerization interface [polypeptide binding]; other site 399739006215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399739006216 Histidine kinase; Region: HisKA_3; pfam07730 399739006217 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 399739006218 ATP binding site [chemical binding]; other site 399739006219 Mg2+ binding site [ion binding]; other site 399739006220 G-X-G motif; other site 399739006221 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739006222 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 399739006223 active site 399739006224 phosphorylation site [posttranslational modification] 399739006225 intermolecular recognition site; other site 399739006226 dimerization interface [polypeptide binding]; other site 399739006227 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 399739006228 DNA binding residues [nucleotide binding] 399739006229 dimerization interface [polypeptide binding]; other site 399739006230 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 399739006231 substrate binding site [chemical binding]; other site 399739006232 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739006233 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739006234 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 399739006235 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 399739006236 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 399739006237 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 399739006238 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 399739006239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 399739006240 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 399739006241 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 399739006242 dimer interface [polypeptide binding]; other site 399739006243 Trp docking motif [polypeptide binding]; other site 399739006244 active site 399739006245 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739006246 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739006247 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 399739006248 membrane-bound complex binding site; other site 399739006249 hinge residues; other site 399739006250 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 399739006251 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 399739006252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739006253 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 399739006254 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 399739006255 dimer interface [polypeptide binding]; other site 399739006256 Trp docking motif [polypeptide binding]; other site 399739006257 active site 399739006258 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 399739006259 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399739006260 NAD(P) binding site [chemical binding]; other site 399739006261 catalytic residues [active] 399739006262 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 399739006263 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 399739006264 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 399739006265 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 399739006266 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 399739006267 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 399739006268 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 399739006269 FeS/SAM binding site; other site 399739006270 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 399739006271 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739006272 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739006273 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 399739006274 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 399739006275 putative active site [active] 399739006276 metal binding site [ion binding]; metal-binding site 399739006277 PAS domain S-box; Region: sensory_box; TIGR00229 399739006278 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 399739006279 putative active site [active] 399739006280 heme pocket [chemical binding]; other site 399739006281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739006282 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 399739006283 dimer interface [polypeptide binding]; other site 399739006284 phosphorylation site [posttranslational modification] 399739006285 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 399739006286 ATP binding site [chemical binding]; other site 399739006287 Mg2+ binding site [ion binding]; other site 399739006288 G-X-G motif; other site 399739006289 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739006290 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 399739006291 active site 399739006292 phosphorylation site [posttranslational modification] 399739006293 intermolecular recognition site; other site 399739006294 dimerization interface [polypeptide binding]; other site 399739006295 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 399739006296 putative active site [active] 399739006297 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 399739006298 binding surface 399739006299 TPR motif; other site 399739006300 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739006301 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739006302 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 399739006303 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 399739006304 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 399739006305 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 399739006306 active site 399739006307 dimer interface [polypeptide binding]; other site 399739006308 motif 1; other site 399739006309 motif 2; other site 399739006310 motif 3; other site 399739006311 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 399739006312 anticodon binding site; other site 399739006313 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 399739006314 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 399739006315 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 399739006316 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 399739006317 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 399739006318 23S rRNA binding site [nucleotide binding]; other site 399739006319 L21 binding site [polypeptide binding]; other site 399739006320 L13 binding site [polypeptide binding]; other site 399739006321 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 399739006322 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 399739006323 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 399739006324 dimer interface [polypeptide binding]; other site 399739006325 motif 1; other site 399739006326 active site 399739006327 motif 2; other site 399739006328 motif 3; other site 399739006329 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 399739006330 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 399739006331 putative tRNA-binding site [nucleotide binding]; other site 399739006332 B3/4 domain; Region: B3_4; pfam03483 399739006333 tRNA synthetase B5 domain; Region: B5; smart00874 399739006334 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 399739006335 dimer interface [polypeptide binding]; other site 399739006336 motif 1; other site 399739006337 motif 3; other site 399739006338 motif 2; other site 399739006339 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 399739006340 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 399739006341 IHF dimer interface [polypeptide binding]; other site 399739006342 IHF - DNA interface [nucleotide binding]; other site 399739006343 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 399739006344 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739006345 DNA binding residues [nucleotide binding] 399739006346 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 399739006347 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 399739006348 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 399739006349 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 399739006350 Part of AAA domain; Region: AAA_19; pfam13245 399739006351 Family description; Region: UvrD_C_2; pfam13538 399739006352 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 399739006353 AAA domain; Region: AAA_30; pfam13604 399739006354 Family description; Region: UvrD_C_2; pfam13538 399739006355 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739006356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739006357 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739006358 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739006359 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739006360 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739006361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739006362 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 399739006363 active site 399739006364 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 399739006365 Predicted membrane protein [Function unknown]; Region: COG3212 399739006366 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 399739006367 Predicted membrane protein [Function unknown]; Region: COG3212 399739006368 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 399739006369 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739006370 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 399739006371 active site 399739006372 phosphorylation site [posttranslational modification] 399739006373 intermolecular recognition site; other site 399739006374 dimerization interface [polypeptide binding]; other site 399739006375 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 399739006376 DNA binding site [nucleotide binding] 399739006377 sensor protein PhoQ; Provisional; Region: PRK10815 399739006378 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 399739006379 ATP binding site [chemical binding]; other site 399739006380 G-X-G motif; other site 399739006381 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739006382 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 399739006383 Cache domain; Region: Cache_1; pfam02743 399739006384 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 399739006385 dimerization interface [polypeptide binding]; other site 399739006386 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739006387 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739006388 dimer interface [polypeptide binding]; other site 399739006389 putative CheW interface [polypeptide binding]; other site 399739006390 Predicted permease [General function prediction only]; Region: COG2056 399739006391 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 399739006392 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 399739006393 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 399739006394 dimerization interface [polypeptide binding]; other site 399739006395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739006396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739006397 dimer interface [polypeptide binding]; other site 399739006398 putative CheW interface [polypeptide binding]; other site 399739006399 LysR family transcriptional regulator; Provisional; Region: PRK14997 399739006400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006401 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 399739006402 dimerization interface [polypeptide binding]; other site 399739006403 azoreductase; Reviewed; Region: PRK00170 399739006404 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739006405 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 399739006406 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739006407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739006408 Walker A/P-loop; other site 399739006409 ATP binding site [chemical binding]; other site 399739006410 ABC transporter signature motif; other site 399739006411 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739006412 Walker B; other site 399739006413 ABC transporter; Region: ABC_tran_2; pfam12848 399739006414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399739006415 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399739006416 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 399739006417 FMN binding site [chemical binding]; other site 399739006418 active site 399739006419 substrate binding site [chemical binding]; other site 399739006420 catalytic residue [active] 399739006421 LysR family transcriptional regulator; Provisional; Region: PRK14997 399739006422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006423 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 399739006424 putative effector binding pocket; other site 399739006425 dimerization interface [polypeptide binding]; other site 399739006426 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 399739006427 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739006428 Walker A/P-loop; other site 399739006429 ATP binding site [chemical binding]; other site 399739006430 Q-loop/lid; other site 399739006431 ABC transporter signature motif; other site 399739006432 Walker B; other site 399739006433 D-loop; other site 399739006434 H-loop/switch region; other site 399739006435 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 399739006436 dimer interface [polypeptide binding]; other site 399739006437 conserved gate region; other site 399739006438 putative PBP binding loops; other site 399739006439 ABC-ATPase subunit interface; other site 399739006440 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 399739006441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739006442 substrate binding pocket [chemical binding]; other site 399739006443 membrane-bound complex binding site; other site 399739006444 hinge residues; other site 399739006445 D-cysteine desulfhydrase; Validated; Region: PRK03910 399739006446 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 399739006447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739006448 catalytic residue [active] 399739006449 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 399739006450 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 399739006451 catalytic triad [active] 399739006452 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 399739006453 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 399739006454 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 399739006455 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 399739006456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739006457 putative metal binding site [ion binding]; other site 399739006458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006460 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 399739006461 putative dimerization interface [polypeptide binding]; other site 399739006462 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 399739006463 FMN binding site [chemical binding]; other site 399739006464 dimer interface [polypeptide binding]; other site 399739006465 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 399739006466 homotrimer interaction site [polypeptide binding]; other site 399739006467 putative active site [active] 399739006468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006470 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 399739006471 putative effector binding pocket; other site 399739006472 putative dimerization interface [polypeptide binding]; other site 399739006473 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 399739006474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006475 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 399739006476 dimerization interface [polypeptide binding]; other site 399739006477 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 399739006478 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739006479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 399739006480 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 399739006481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006483 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 399739006484 putative dimerization interface [polypeptide binding]; other site 399739006485 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 399739006486 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 399739006487 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 399739006488 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 399739006489 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 399739006490 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 399739006491 Walker A motif; other site 399739006492 ATP binding site [chemical binding]; other site 399739006493 Walker B motif; other site 399739006494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739006495 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 399739006496 substrate binding pocket [chemical binding]; other site 399739006497 membrane-bound complex binding site; other site 399739006498 hinge residues; other site 399739006499 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 399739006500 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 399739006501 acyl-activating enzyme (AAE) consensus motif; other site 399739006502 putative AMP binding site [chemical binding]; other site 399739006503 putative active site [active] 399739006504 putative CoA binding site [chemical binding]; other site 399739006505 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 399739006506 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 399739006507 active site 399739006508 catalytic residues [active] 399739006509 metal binding site [ion binding]; metal-binding site 399739006510 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 399739006511 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739006512 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739006513 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399739006514 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 399739006515 carboxyltransferase (CT) interaction site; other site 399739006516 biotinylation site [posttranslational modification]; other site 399739006517 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 399739006518 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 399739006519 substrate binding site [chemical binding]; other site 399739006520 oxyanion hole (OAH) forming residues; other site 399739006521 trimer interface [polypeptide binding]; other site 399739006522 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 399739006523 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 399739006524 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399739006525 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399739006526 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 399739006527 isovaleryl-CoA dehydrogenase; Region: PLN02519 399739006528 substrate binding site [chemical binding]; other site 399739006529 FAD binding site [chemical binding]; other site 399739006530 catalytic base [active] 399739006531 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 399739006532 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 399739006533 DNA binding residues [nucleotide binding] 399739006534 putative dimer interface [polypeptide binding]; other site 399739006535 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 399739006536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739006537 NAD(P) binding site [chemical binding]; other site 399739006538 active site 399739006539 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 399739006540 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 399739006541 dimer interface [polypeptide binding]; other site 399739006542 active site 399739006543 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739006544 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739006545 active site 399739006546 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 399739006547 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 399739006548 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739006549 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 399739006550 AsnC family; Region: AsnC_trans_reg; pfam01037 399739006551 EamA-like transporter family; Region: EamA; pfam00892 399739006552 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 399739006553 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 399739006554 Walker A motif; other site 399739006555 ATP binding site [chemical binding]; other site 399739006556 Walker B motif; other site 399739006557 arginine finger; other site 399739006558 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739006559 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 399739006560 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 399739006561 Walker A/P-loop; other site 399739006562 ATP binding site [chemical binding]; other site 399739006563 Q-loop/lid; other site 399739006564 ABC transporter signature motif; other site 399739006565 Walker B; other site 399739006566 D-loop; other site 399739006567 H-loop/switch region; other site 399739006568 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 399739006569 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 399739006570 Walker A/P-loop; other site 399739006571 ATP binding site [chemical binding]; other site 399739006572 Q-loop/lid; other site 399739006573 ABC transporter signature motif; other site 399739006574 Walker B; other site 399739006575 D-loop; other site 399739006576 H-loop/switch region; other site 399739006577 TOBE domain; Region: TOBE_2; pfam08402 399739006578 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 399739006579 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 399739006580 dimer interface [polypeptide binding]; other site 399739006581 conserved gate region; other site 399739006582 putative PBP binding loops; other site 399739006583 ABC-ATPase subunit interface; other site 399739006584 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 399739006585 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 399739006586 dimer interface [polypeptide binding]; other site 399739006587 conserved gate region; other site 399739006588 putative PBP binding loops; other site 399739006589 ABC-ATPase subunit interface; other site 399739006590 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 399739006591 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 399739006592 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 399739006593 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 399739006594 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 399739006595 homodimer interface [polypeptide binding]; other site 399739006596 NADP binding site [chemical binding]; other site 399739006597 substrate binding site [chemical binding]; other site 399739006598 trigger factor; Provisional; Region: tig; PRK01490 399739006599 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739006600 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 399739006601 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 399739006602 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 399739006603 oligomer interface [polypeptide binding]; other site 399739006604 active site residues [active] 399739006605 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 399739006606 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 399739006607 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 399739006608 Walker A motif; other site 399739006609 ATP binding site [chemical binding]; other site 399739006610 Walker B motif; other site 399739006611 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 399739006612 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 399739006613 Found in ATP-dependent protease La (LON); Region: LON; smart00464 399739006614 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 399739006615 Walker A motif; other site 399739006616 ATP binding site [chemical binding]; other site 399739006617 Walker B motif; other site 399739006618 arginine finger; other site 399739006619 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399739006620 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 399739006621 IHF dimer interface [polypeptide binding]; other site 399739006622 IHF - DNA interface [nucleotide binding]; other site 399739006623 periplasmic folding chaperone; Provisional; Region: PRK10788 399739006624 SurA N-terminal domain; Region: SurA_N_3; pfam13624 399739006625 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399739006626 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 399739006627 putative active site [active] 399739006628 catalytic site [active] 399739006629 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 399739006630 PLD-like domain; Region: PLDc_2; pfam13091 399739006631 putative active site [active] 399739006632 catalytic site [active] 399739006633 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 399739006634 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 399739006635 NAD binding site [chemical binding]; other site 399739006636 homotetramer interface [polypeptide binding]; other site 399739006637 homodimer interface [polypeptide binding]; other site 399739006638 substrate binding site [chemical binding]; other site 399739006639 active site 399739006640 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 399739006641 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399739006642 Walker A/P-loop; other site 399739006643 ATP binding site [chemical binding]; other site 399739006644 Q-loop/lid; other site 399739006645 ABC transporter signature motif; other site 399739006646 Walker B; other site 399739006647 D-loop; other site 399739006648 H-loop/switch region; other site 399739006649 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399739006650 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399739006651 Walker A/P-loop; other site 399739006652 ATP binding site [chemical binding]; other site 399739006653 Q-loop/lid; other site 399739006654 ABC transporter signature motif; other site 399739006655 Walker B; other site 399739006656 D-loop; other site 399739006657 H-loop/switch region; other site 399739006658 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399739006659 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 399739006660 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 399739006661 dimer interface [polypeptide binding]; other site 399739006662 conserved gate region; other site 399739006663 putative PBP binding loops; other site 399739006664 ABC-ATPase subunit interface; other site 399739006665 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 399739006666 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 399739006667 dimer interface [polypeptide binding]; other site 399739006668 conserved gate region; other site 399739006669 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 399739006670 ABC-ATPase subunit interface; other site 399739006671 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 399739006672 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 399739006673 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 399739006674 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 399739006675 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 399739006676 HDOD domain; Region: HDOD; pfam08668 399739006677 GAF domain; Region: GAF; cl17456 399739006678 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 399739006679 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 399739006680 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739006681 catalytic residue [active] 399739006682 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739006683 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739006684 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739006685 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 399739006686 Methyltransferase domain; Region: Methyltransf_11; pfam08241 399739006687 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 399739006688 RNA/DNA hybrid binding site [nucleotide binding]; other site 399739006689 active site 399739006690 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 399739006691 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 399739006692 active site 399739006693 catalytic site [active] 399739006694 substrate binding site [chemical binding]; other site 399739006695 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 399739006696 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 399739006697 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 399739006698 homodimer interface [polypeptide binding]; other site 399739006699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739006700 catalytic residue [active] 399739006701 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 399739006702 enoyl-CoA hydratase; Provisional; Region: PRK06142 399739006703 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 399739006704 substrate binding site [chemical binding]; other site 399739006705 oxyanion hole (OAH) forming residues; other site 399739006706 trimer interface [polypeptide binding]; other site 399739006707 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 399739006708 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 399739006709 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 399739006710 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 399739006711 putative NADH binding site [chemical binding]; other site 399739006712 putative active site [active] 399739006713 nudix motif; other site 399739006714 putative metal binding site [ion binding]; other site 399739006715 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399739006716 hypothetical protein; Provisional; Region: PRK10621 399739006717 short chain dehydrogenase; Provisional; Region: PRK07035 399739006718 classical (c) SDRs; Region: SDR_c; cd05233 399739006719 NAD(P) binding site [chemical binding]; other site 399739006720 active site 399739006721 Phosphotransferase enzyme family; Region: APH; pfam01636 399739006722 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 399739006723 putative active site [active] 399739006724 putative substrate binding site [chemical binding]; other site 399739006725 ATP binding site [chemical binding]; other site 399739006726 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 399739006727 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 399739006728 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 399739006729 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 399739006730 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739006731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739006732 DNA-binding site [nucleotide binding]; DNA binding site 399739006733 FCD domain; Region: FCD; pfam07729 399739006734 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399739006735 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 399739006736 tetramer interface [polypeptide binding]; other site 399739006737 active site 399739006738 Mg2+/Mn2+ binding site [ion binding]; other site 399739006739 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 399739006740 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 399739006741 dimer interface [polypeptide binding]; other site 399739006742 active site 399739006743 citrylCoA binding site [chemical binding]; other site 399739006744 oxalacetate/citrate binding site [chemical binding]; other site 399739006745 coenzyme A binding site [chemical binding]; other site 399739006746 catalytic triad [active] 399739006747 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 399739006748 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 399739006749 substrate binding site [chemical binding]; other site 399739006750 ligand binding site [chemical binding]; other site 399739006751 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 399739006752 substrate binding site [chemical binding]; other site 399739006753 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 399739006754 PEP synthetase regulatory protein; Provisional; Region: PRK05339 399739006755 phosphoenolpyruvate synthase; Validated; Region: PRK06464 399739006756 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 399739006757 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399739006758 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399739006759 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739006760 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 399739006761 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 399739006762 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 399739006763 oligomer interface [polypeptide binding]; other site 399739006764 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 399739006765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739006766 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 399739006767 DNA binding residues [nucleotide binding] 399739006768 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 399739006769 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739006770 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739006771 ligand binding site [chemical binding]; other site 399739006772 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 399739006773 active site 399739006774 SAM binding site [chemical binding]; other site 399739006775 homodimer interface [polypeptide binding]; other site 399739006776 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 399739006777 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 399739006778 [4Fe-4S] binding site [ion binding]; other site 399739006779 molybdopterin cofactor binding site; other site 399739006780 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 399739006781 molybdopterin cofactor binding site; other site 399739006782 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 399739006783 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 399739006784 [2Fe-2S] cluster binding site [ion binding]; other site 399739006785 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 399739006786 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739006787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739006788 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 399739006789 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 399739006790 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399739006791 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 399739006792 active site 399739006793 Protein kinase domain; Region: Pkinase; pfam00069 399739006794 Catalytic domain of Protein Kinases; Region: PKc; cd00180 399739006795 active site 399739006796 ATP binding site [chemical binding]; other site 399739006797 substrate binding site [chemical binding]; other site 399739006798 activation loop (A-loop); other site 399739006799 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 399739006800 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 399739006801 putative substrate translocation pore; other site 399739006802 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 399739006803 active site 399739006804 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 399739006805 Sulfatase; Region: Sulfatase; pfam00884 399739006806 Alginate lyase; Region: Alginate_lyase2; pfam08787 399739006807 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 399739006808 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 399739006809 Walker A/P-loop; other site 399739006810 ATP binding site [chemical binding]; other site 399739006811 Q-loop/lid; other site 399739006812 ABC transporter signature motif; other site 399739006813 Walker B; other site 399739006814 D-loop; other site 399739006815 H-loop/switch region; other site 399739006816 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 399739006817 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 399739006818 dimer interface [polypeptide binding]; other site 399739006819 conserved gate region; other site 399739006820 putative PBP binding loops; other site 399739006821 ABC-ATPase subunit interface; other site 399739006822 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 399739006823 NMT1-like family; Region: NMT1_2; pfam13379 399739006824 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 399739006825 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 399739006826 substrate binding site [chemical binding]; other site 399739006827 oxyanion hole (OAH) forming residues; other site 399739006828 trimer interface [polypeptide binding]; other site 399739006829 integrase; Provisional; Region: int; PHA02601 399739006830 Nitrogen regulatory protein P-II; Region: P-II; cl00412 399739006831 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 399739006832 active site 399739006833 DNA binding site [nucleotide binding] 399739006834 Int/Topo IB signature motif; other site 399739006835 Zonular occludens toxin (Zot); Region: Zot; cl17485 399739006836 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 399739006837 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 399739006838 Helix-turn-helix domain; Region: HTH_17; cl17695 399739006839 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 399739006840 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 399739006841 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 399739006842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 399739006843 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 399739006844 elongation factor P; Validated; Region: PRK00529 399739006845 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 399739006846 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 399739006847 RNA binding site [nucleotide binding]; other site 399739006848 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 399739006849 RNA binding site [nucleotide binding]; other site 399739006850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006852 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 399739006853 putative effector binding pocket; other site 399739006854 dimerization interface [polypeptide binding]; other site 399739006855 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399739006856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006858 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 399739006859 dimerization interface [polypeptide binding]; other site 399739006860 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 399739006861 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399739006862 EamA-like transporter family; Region: EamA; pfam00892 399739006863 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 399739006864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 399739006865 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 399739006866 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 399739006867 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 399739006868 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 399739006869 bile acid transporter; Region: bass; TIGR00841 399739006870 Sodium Bile acid symporter family; Region: SBF; cl17470 399739006871 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 399739006872 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 399739006873 S-adenosylmethionine binding site [chemical binding]; other site 399739006874 helicase 45; Provisional; Region: PTZ00424 399739006875 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 399739006876 ATP binding site [chemical binding]; other site 399739006877 Mg++ binding site [ion binding]; other site 399739006878 motif III; other site 399739006879 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 399739006880 nucleotide binding region [chemical binding]; other site 399739006881 ATP-binding site [chemical binding]; other site 399739006882 DbpA RNA binding domain; Region: DbpA; pfam03880 399739006883 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 399739006884 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 399739006885 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399739006886 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399739006887 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 399739006888 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 399739006889 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 399739006890 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 399739006891 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739006892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739006893 metal binding site [ion binding]; metal-binding site 399739006894 active site 399739006895 I-site; other site 399739006896 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 399739006897 SnoaL-like domain; Region: SnoaL_2; pfam12680 399739006898 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739006899 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739006900 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739006901 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739006902 Cache domain; Region: Cache_1; pfam02743 399739006903 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 399739006904 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739006905 dimerization interface [polypeptide binding]; other site 399739006906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739006907 dimer interface [polypeptide binding]; other site 399739006908 putative CheW interface [polypeptide binding]; other site 399739006909 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 399739006910 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 399739006911 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 399739006912 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 399739006913 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 399739006914 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 399739006915 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 399739006916 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 399739006917 substrate binding pocket [chemical binding]; other site 399739006918 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 399739006919 B12 binding site [chemical binding]; other site 399739006920 cobalt ligand [ion binding]; other site 399739006921 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 399739006922 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 399739006923 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 399739006924 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 399739006925 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 399739006926 HPP family; Region: HPP; pfam04982 399739006927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 399739006928 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 399739006929 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739006930 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 399739006931 conserved cys residue [active] 399739006932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739006933 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 399739006934 putative heme binding pocket [chemical binding]; other site 399739006935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739006936 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739006937 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 399739006938 Walker A motif; other site 399739006939 ATP binding site [chemical binding]; other site 399739006940 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739006941 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 399739006942 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739006943 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 399739006944 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 399739006945 AAA domain; Region: AAA_28; pfam13521 399739006946 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 399739006947 Cache domain; Region: Cache_2; pfam08269 399739006948 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 399739006949 dimerization interface [polypeptide binding]; other site 399739006950 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739006951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739006952 dimer interface [polypeptide binding]; other site 399739006953 putative CheW interface [polypeptide binding]; other site 399739006954 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 399739006955 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 399739006956 DNA-binding site [nucleotide binding]; DNA binding site 399739006957 RNA-binding motif; other site 399739006958 Predicted membrane protein [Function unknown]; Region: COG3326 399739006959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 399739006960 aminoglycoside resistance protein; Provisional; Region: PRK13746 399739006961 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 399739006962 active site 399739006963 NTP binding site [chemical binding]; other site 399739006964 metal binding triad [ion binding]; metal-binding site 399739006965 antibiotic binding site [chemical binding]; other site 399739006966 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 399739006967 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 399739006968 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 399739006969 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739006970 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739006971 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739006972 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 399739006973 Fic/DOC family; Region: Fic; pfam02661 399739006974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739006975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739006976 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 399739006977 putative substrate binding pocket [chemical binding]; other site 399739006978 putative dimerization interface [polypeptide binding]; other site 399739006979 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 399739006980 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 399739006981 putative NAD(P) binding site [chemical binding]; other site 399739006982 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399739006983 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 399739006984 Response regulator receiver domain; Region: Response_reg; pfam00072 399739006985 active site 399739006986 phosphorylation site [posttranslational modification] 399739006987 intermolecular recognition site; other site 399739006988 dimerization interface [polypeptide binding]; other site 399739006989 Cupin; Region: Cupin_6; pfam12852 399739006990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739006991 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739006992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739006993 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 399739006994 MgtE intracellular N domain; Region: MgtE_N; pfam03448 399739006995 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 399739006996 Divalent cation transporter; Region: MgtE; pfam01769 399739006997 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 399739006998 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 399739006999 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 399739007000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739007001 DNA-binding site [nucleotide binding]; DNA binding site 399739007002 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 399739007003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739007004 homodimer interface [polypeptide binding]; other site 399739007005 catalytic residue [active] 399739007006 outer membrane porin, OprD family; Region: OprD; pfam03573 399739007007 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 399739007008 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 399739007009 putative active site [active] 399739007010 putative metal binding site [ion binding]; other site 399739007011 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 399739007012 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 399739007013 ATP binding site [chemical binding]; other site 399739007014 putative Mg++ binding site [ion binding]; other site 399739007015 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 399739007016 nucleotide binding region [chemical binding]; other site 399739007017 ATP-binding site [chemical binding]; other site 399739007018 DEAD/H associated; Region: DEAD_assoc; pfam08494 399739007019 ATP-dependent DNA ligase; Validated; Region: PRK09247 399739007020 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 399739007021 active site 399739007022 DNA binding site [nucleotide binding] 399739007023 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 399739007024 DNA binding site [nucleotide binding] 399739007025 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 399739007026 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 399739007027 Cytochrome c; Region: Cytochrom_C; cl11414 399739007028 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 399739007029 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 399739007030 catalytic loop [active] 399739007031 iron binding site [ion binding]; other site 399739007032 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399739007033 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739007034 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399739007035 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 399739007036 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739007037 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739007038 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 399739007039 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 399739007040 XdhC Rossmann domain; Region: XdhC_C; pfam13478 399739007041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739007042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739007043 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 399739007044 putative substrate binding pocket [chemical binding]; other site 399739007045 putative dimerization interface [polypeptide binding]; other site 399739007046 DinB family; Region: DinB; cl17821 399739007047 DinB superfamily; Region: DinB_2; pfam12867 399739007048 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 399739007049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739007050 Walker A/P-loop; other site 399739007051 ATP binding site [chemical binding]; other site 399739007052 Q-loop/lid; other site 399739007053 ABC transporter signature motif; other site 399739007054 Walker B; other site 399739007055 D-loop; other site 399739007056 H-loop/switch region; other site 399739007057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739007058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739007059 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 399739007060 putative effector binding pocket; other site 399739007061 putative dimerization interface [polypeptide binding]; other site 399739007062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739007063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739007064 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 399739007065 putative effector binding pocket; other site 399739007066 putative dimerization interface [polypeptide binding]; other site 399739007067 short chain dehydrogenase; Provisional; Region: PRK06180 399739007068 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 399739007069 NADP binding site [chemical binding]; other site 399739007070 active site 399739007071 steroid binding site; other site 399739007072 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739007073 Predicted transcriptional regulator [Transcription]; Region: COG3905 399739007074 Outer membrane efflux protein; Region: OEP; pfam02321 399739007075 Outer membrane efflux protein; Region: OEP; pfam02321 399739007076 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 399739007077 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739007078 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 399739007079 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 399739007080 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739007081 outer membrane porin, OprD family; Region: OprD; pfam03573 399739007082 Predicted metal-binding protein [General function prediction only]; Region: COG3019 399739007083 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739007084 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 399739007085 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 399739007086 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 399739007087 Multicopper oxidase; Region: Cu-oxidase; pfam00394 399739007088 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 399739007089 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 399739007090 hypothetical protein; Provisional; Region: PRK05409 399739007091 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 399739007092 Class I aldolases; Region: Aldolase_Class_I; cl17187 399739007093 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 399739007094 metal-binding site [ion binding] 399739007095 Predicted transcriptional regulators [Transcription]; Region: COG1695 399739007096 Transcriptional regulator PadR-like family; Region: PadR; cl17335 399739007097 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 399739007098 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 399739007099 Chromate transporter; Region: Chromate_transp; pfam02417 399739007100 YHS domain; Region: YHS; pfam04945 399739007101 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 399739007102 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399739007103 Soluble P-type ATPase [General function prediction only]; Region: COG4087 399739007104 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 399739007105 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 399739007106 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 399739007107 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 399739007108 active site 399739007109 phosphorylation site [posttranslational modification] 399739007110 intermolecular recognition site; other site 399739007111 dimerization interface [polypeptide binding]; other site 399739007112 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 399739007113 DNA binding site [nucleotide binding] 399739007114 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 399739007115 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 399739007116 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 399739007117 dimerization interface [polypeptide binding]; other site 399739007118 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 399739007119 dimer interface [polypeptide binding]; other site 399739007120 phosphorylation site [posttranslational modification] 399739007121 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 399739007122 ATP binding site [chemical binding]; other site 399739007123 Mg2+ binding site [ion binding]; other site 399739007124 G-X-G motif; other site 399739007125 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 399739007126 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 399739007127 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 399739007128 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 399739007129 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 399739007130 putative homodimer interface [polypeptide binding]; other site 399739007131 putative homotetramer interface [polypeptide binding]; other site 399739007132 putative metal binding site [ion binding]; other site 399739007133 putative homodimer-homodimer interface [polypeptide binding]; other site 399739007134 putative allosteric switch controlling residues; other site 399739007135 High-affinity nickel-transport protein; Region: NicO; cl00964 399739007136 High-affinity nickel-transport protein; Region: NicO; cl00964 399739007137 Predicted membrane protein [Function unknown]; Region: COG1238 399739007138 TraX protein; Region: TraX; pfam05857 399739007139 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 399739007140 active site residue [active] 399739007141 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 399739007142 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 399739007143 Chromate transporter; Region: Chromate_transp; pfam02417 399739007144 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 399739007145 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 399739007146 DNA binding site [nucleotide binding] 399739007147 dimer interface [polypeptide binding]; other site 399739007148 active site 399739007149 Int/Topo IB signature motif; other site 399739007150 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 399739007151 AAA domain; Region: AAA_22; pfam13401 399739007152 AAA ATPase domain; Region: AAA_16; pfam13191 399739007153 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 399739007154 dinuclear metal binding motif [ion binding]; other site 399739007155 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 399739007156 dinuclear metal binding motif [ion binding]; other site 399739007157 Predicted membrane protein [Function unknown]; Region: COG3205 399739007158 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 399739007159 dinuclear metal binding motif [ion binding]; other site 399739007160 General stress protein [General function prediction only]; Region: GsiB; COG3729 399739007161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739007162 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739007163 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 399739007164 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 399739007165 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 399739007166 active site 399739007167 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 399739007168 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 399739007169 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 399739007170 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 399739007171 Cytochrome c; Region: Cytochrom_C; cl11414 399739007172 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 399739007173 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 399739007174 D-pathway; other site 399739007175 Putative ubiquinol binding site [chemical binding]; other site 399739007176 Low-spin heme (heme b) binding site [chemical binding]; other site 399739007177 Putative water exit pathway; other site 399739007178 Binuclear center (heme o3/CuB) [ion binding]; other site 399739007179 K-pathway; other site 399739007180 Putative proton exit pathway; other site 399739007181 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 399739007182 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 399739007183 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 399739007184 dimerization interface [polypeptide binding]; other site 399739007185 hydroperoxidase II; Provisional; Region: katE; PRK11249 399739007186 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 399739007187 tetramer interface [polypeptide binding]; other site 399739007188 heme binding pocket [chemical binding]; other site 399739007189 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 399739007190 domain interactions; other site 399739007191 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 399739007192 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399739007193 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399739007194 Competence-damaged protein; Region: CinA; pfam02464 399739007195 glycogen synthase; Provisional; Region: glgA; PRK00654 399739007196 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 399739007197 ADP-binding pocket [chemical binding]; other site 399739007198 homodimer interface [polypeptide binding]; other site 399739007199 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 399739007200 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 399739007201 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 399739007202 catalytic site [active] 399739007203 active site 399739007204 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 399739007205 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 399739007206 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 399739007207 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 399739007208 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 399739007209 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 399739007210 active site 399739007211 catalytic site [active] 399739007212 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 399739007213 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 399739007214 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 399739007215 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 399739007216 active site 399739007217 catalytic site [active] 399739007218 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 399739007219 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 399739007220 NAD binding site [chemical binding]; other site 399739007221 catalytic Zn binding site [ion binding]; other site 399739007222 structural Zn binding site [ion binding]; other site 399739007223 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399739007224 putative catalytic site [active] 399739007225 putative metal binding site [ion binding]; other site 399739007226 putative phosphate binding site [ion binding]; other site 399739007227 cardiolipin synthase 2; Provisional; Region: PRK11263 399739007228 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 399739007229 putative active site [active] 399739007230 catalytic site [active] 399739007231 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 399739007232 putative active site [active] 399739007233 catalytic site [active] 399739007234 Predicted integral membrane protein [Function unknown]; Region: COG0392 399739007235 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 399739007236 homodimer interface [polypeptide binding]; other site 399739007237 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 399739007238 active site pocket [active] 399739007239 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 399739007240 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739007241 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739007242 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739007243 FOG: CBS domain [General function prediction only]; Region: COG0517 399739007244 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_9; cd04622 399739007245 glycogen branching enzyme; Provisional; Region: PRK05402 399739007246 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 399739007247 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 399739007248 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 399739007249 active site 399739007250 catalytic site [active] 399739007251 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 399739007252 trehalose synthase; Region: treS_nterm; TIGR02456 399739007253 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 399739007254 active site 399739007255 catalytic site [active] 399739007256 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 399739007257 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 399739007258 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 399739007259 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 399739007260 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 399739007261 active site 399739007262 homodimer interface [polypeptide binding]; other site 399739007263 catalytic site [active] 399739007264 acceptor binding site [chemical binding]; other site 399739007265 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 399739007266 MgtC family; Region: MgtC; pfam02308 399739007267 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 399739007268 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 399739007269 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 399739007270 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 399739007271 NAD binding site [chemical binding]; other site 399739007272 catalytic Zn binding site [ion binding]; other site 399739007273 structural Zn binding site [ion binding]; other site 399739007274 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 399739007275 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 399739007276 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 399739007277 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 399739007278 S-adenosylmethionine binding site [chemical binding]; other site 399739007279 Hemerythrin-like domain; Region: Hr-like; cd12108 399739007280 General stress protein [General function prediction only]; Region: GsiB; COG3729 399739007281 short chain dehydrogenase; Provisional; Region: PRK06701 399739007282 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 399739007283 NAD binding site [chemical binding]; other site 399739007284 metal binding site [ion binding]; metal-binding site 399739007285 active site 399739007286 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 399739007287 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 399739007288 active site 399739007289 tetramer interface; other site 399739007290 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 399739007291 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 399739007292 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 399739007293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739007294 Walker A/P-loop; other site 399739007295 ATP binding site [chemical binding]; other site 399739007296 Q-loop/lid; other site 399739007297 ABC transporter signature motif; other site 399739007298 Walker B; other site 399739007299 D-loop; other site 399739007300 H-loop/switch region; other site 399739007301 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 399739007302 Catalytic domain of Protein Kinases; Region: PKc; cd00180 399739007303 active site 399739007304 ATP binding site [chemical binding]; other site 399739007305 substrate binding site [chemical binding]; other site 399739007306 activation loop (A-loop); other site 399739007307 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 399739007308 metal ion-dependent adhesion site (MIDAS); other site 399739007309 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 399739007310 Protein phosphatase 2C; Region: PP2C; pfam00481 399739007311 active site 399739007312 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 399739007313 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 399739007314 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 399739007315 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 399739007316 hypothetical protein; Provisional; Region: PRK07033 399739007317 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 399739007318 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739007319 ligand binding site [chemical binding]; other site 399739007320 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 399739007321 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 399739007322 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 399739007323 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 399739007324 phosphopeptide binding site; other site 399739007325 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 399739007326 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 399739007327 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 399739007328 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 399739007329 Protein of unknown function (DUF877); Region: DUF877; pfam05943 399739007330 Protein of unknown function (DUF796); Region: DUF796; pfam05638 399739007331 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 399739007332 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 399739007333 ImpE protein; Region: ImpE; pfam07024 399739007334 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 399739007335 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 399739007336 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 399739007337 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 399739007338 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 399739007339 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 399739007340 Walker A motif; other site 399739007341 ATP binding site [chemical binding]; other site 399739007342 Walker B motif; other site 399739007343 arginine finger; other site 399739007344 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 399739007345 Walker A motif; other site 399739007346 ATP binding site [chemical binding]; other site 399739007347 Walker B motif; other site 399739007348 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 399739007349 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 399739007350 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 399739007351 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 399739007352 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 399739007353 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 399739007354 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 399739007355 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 399739007356 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 399739007357 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 399739007358 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 399739007359 conserved hypothetical protein; Region: TIGR02270 399739007360 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 399739007361 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 399739007362 NAD binding site [chemical binding]; other site 399739007363 homodimer interface [polypeptide binding]; other site 399739007364 active site 399739007365 substrate binding site [chemical binding]; other site 399739007366 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 399739007367 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739007368 putative homodimer interface [polypeptide binding]; other site 399739007369 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 399739007370 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739007371 UDP-galactopyranose mutase; Region: GLF; pfam03275 399739007372 beta-galactosidase; Region: BGL; TIGR03356 399739007373 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 399739007374 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739007375 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739007376 Walker A/P-loop; other site 399739007377 ATP binding site [chemical binding]; other site 399739007378 Q-loop/lid; other site 399739007379 ABC transporter signature motif; other site 399739007380 Walker B; other site 399739007381 D-loop; other site 399739007382 H-loop/switch region; other site 399739007383 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399739007384 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 399739007385 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739007386 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 399739007387 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 399739007388 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 399739007389 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399739007390 Protein of unknown function DUF72; Region: DUF72; pfam01904 399739007391 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 399739007392 dimer interface [polypeptide binding]; other site 399739007393 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739007394 metal binding site [ion binding]; metal-binding site 399739007395 Predicted membrane protein [Function unknown]; Region: COG2860 399739007396 UPF0126 domain; Region: UPF0126; pfam03458 399739007397 UPF0126 domain; Region: UPF0126; pfam03458 399739007398 glutathione reductase; Validated; Region: PRK06116 399739007399 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739007400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739007401 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399739007402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739007403 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 399739007404 active site 399739007405 metal binding site [ion binding]; metal-binding site 399739007406 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 399739007407 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 399739007408 active site 399739007409 tetramer interface; other site 399739007410 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 399739007411 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399739007412 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399739007413 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 399739007414 thiamine pyrophosphate protein; Provisional; Region: PRK08273 399739007415 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 399739007416 PYR/PP interface [polypeptide binding]; other site 399739007417 dimer interface [polypeptide binding]; other site 399739007418 tetramer interface [polypeptide binding]; other site 399739007419 TPP binding site [chemical binding]; other site 399739007420 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399739007421 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 399739007422 TPP-binding site [chemical binding]; other site 399739007423 na(+)/h(+) antiporter; Region: c_cpa1; TIGR00844 399739007424 short chain dehydrogenase; Provisional; Region: PRK07109 399739007425 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 399739007426 putative NAD(P) binding site [chemical binding]; other site 399739007427 active site 399739007428 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 399739007429 dimerization interface [polypeptide binding]; other site 399739007430 short chain dehydrogenase; Provisional; Region: PRK06139 399739007431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739007432 NAD(P) binding site [chemical binding]; other site 399739007433 active site 399739007434 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 399739007435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739007436 active site 399739007437 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 399739007438 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 399739007439 Flavin binding site [chemical binding]; other site 399739007440 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 399739007441 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 399739007442 active site 399739007443 non-prolyl cis peptide bond; other site 399739007444 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 399739007445 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 399739007446 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 399739007447 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 399739007448 Walker A/P-loop; other site 399739007449 ATP binding site [chemical binding]; other site 399739007450 Q-loop/lid; other site 399739007451 ABC transporter signature motif; other site 399739007452 Walker B; other site 399739007453 D-loop; other site 399739007454 H-loop/switch region; other site 399739007455 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 399739007456 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 399739007457 dimer interface [polypeptide binding]; other site 399739007458 conserved gate region; other site 399739007459 ABC-ATPase subunit interface; other site 399739007460 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 399739007461 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 399739007462 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 399739007463 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 399739007464 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 399739007465 TrkA-N domain; Region: TrkA_N; pfam02254 399739007466 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 399739007467 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 399739007468 Clp amino terminal domain; Region: Clp_N; pfam02861 399739007469 Clp amino terminal domain; Region: Clp_N; pfam02861 399739007470 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 399739007471 Walker A motif; other site 399739007472 ATP binding site [chemical binding]; other site 399739007473 Walker B motif; other site 399739007474 arginine finger; other site 399739007475 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 399739007476 Walker A motif; other site 399739007477 ATP binding site [chemical binding]; other site 399739007478 Walker B motif; other site 399739007479 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 399739007480 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 399739007481 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 399739007482 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 399739007483 GIY-YIG motif/motif A; other site 399739007484 active site 399739007485 catalytic site [active] 399739007486 putative DNA binding site [nucleotide binding]; other site 399739007487 metal binding site [ion binding]; metal-binding site 399739007488 UvrB/uvrC motif; Region: UVR; pfam02151 399739007489 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 399739007490 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 399739007491 DNA binding site [nucleotide binding] 399739007492 response regulator; Provisional; Region: PRK09483 399739007493 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 399739007494 active site 399739007495 phosphorylation site [posttranslational modification] 399739007496 intermolecular recognition site; other site 399739007497 dimerization interface [polypeptide binding]; other site 399739007498 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 399739007499 DNA binding residues [nucleotide binding] 399739007500 dimerization interface [polypeptide binding]; other site 399739007501 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 399739007502 YccA-like proteins; Region: YccA_like; cd10433 399739007503 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 399739007504 sulfur relay protein TusC; Validated; Region: PRK00211 399739007505 DsrH like protein; Region: DsrH; pfam04077 399739007506 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 399739007507 hypothetical protein; Validated; Region: PRK09071 399739007508 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 399739007509 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 399739007510 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 399739007511 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 399739007512 putative dimer interface [polypeptide binding]; other site 399739007513 N-terminal domain interface [polypeptide binding]; other site 399739007514 putative substrate binding pocket (H-site) [chemical binding]; other site 399739007515 siroheme synthase; Provisional; Region: cysG; PRK10637 399739007516 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 399739007517 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 399739007518 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 399739007519 active site 399739007520 SAM binding site [chemical binding]; other site 399739007521 homodimer interface [polypeptide binding]; other site 399739007522 seryl-tRNA synthetase; Provisional; Region: PRK05431 399739007523 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 399739007524 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 399739007525 dimer interface [polypeptide binding]; other site 399739007526 active site 399739007527 motif 1; other site 399739007528 motif 2; other site 399739007529 motif 3; other site 399739007530 camphor resistance protein CrcB; Provisional; Region: PRK14234 399739007531 recombination factor protein RarA; Reviewed; Region: PRK13342 399739007532 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 399739007533 Walker A motif; other site 399739007534 ATP binding site [chemical binding]; other site 399739007535 Walker B motif; other site 399739007536 arginine finger; other site 399739007537 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 399739007538 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 399739007539 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 399739007540 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 399739007541 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 399739007542 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 399739007543 thioredoxin reductase; Provisional; Region: PRK10262 399739007544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739007545 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739007546 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 399739007547 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 399739007548 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 399739007549 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 399739007550 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 399739007551 rRNA binding site [nucleotide binding]; other site 399739007552 predicted 30S ribosome binding site; other site 399739007553 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 399739007554 Clp amino terminal domain; Region: Clp_N; pfam02861 399739007555 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 399739007556 Walker A motif; other site 399739007557 ATP binding site [chemical binding]; other site 399739007558 Walker B motif; other site 399739007559 arginine finger; other site 399739007560 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 399739007561 Walker A motif; other site 399739007562 ATP binding site [chemical binding]; other site 399739007563 Walker B motif; other site 399739007564 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 399739007565 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 399739007566 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 399739007567 DNA-binding site [nucleotide binding]; DNA binding site 399739007568 RNA-binding motif; other site 399739007569 isocitrate dehydrogenase; Validated; Region: PRK07362 399739007570 isocitrate dehydrogenase; Reviewed; Region: PRK07006 399739007571 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 399739007572 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 399739007573 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 399739007574 nudix motif; other site 399739007575 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 399739007576 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 399739007577 putative lysogenization regulator; Reviewed; Region: PRK00218 399739007578 EamA-like transporter family; Region: EamA; pfam00892 399739007579 EamA-like transporter family; Region: EamA; cl17759 399739007580 adenylosuccinate lyase; Provisional; Region: PRK09285 399739007581 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 399739007582 tetramer interface [polypeptide binding]; other site 399739007583 active site 399739007584 Uncharacterized conserved protein [Function unknown]; Region: COG2850 399739007585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739007586 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739007587 Coenzyme A binding pocket [chemical binding]; other site 399739007588 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739007589 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399739007590 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 399739007591 tetramer interface [polypeptide binding]; other site 399739007592 isocitrate lyase; Provisional; Region: PRK15063 399739007593 active site 399739007594 Mg2+/Mn2+ binding site [ion binding]; other site 399739007595 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 399739007596 Pectinacetylesterase; Region: PAE; pfam03283 399739007597 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 399739007598 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 399739007599 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 399739007600 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 399739007601 NADH dehydrogenase subunit D; Validated; Region: PRK06075 399739007602 NADH dehydrogenase subunit E; Validated; Region: PRK07539 399739007603 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 399739007604 putative dimer interface [polypeptide binding]; other site 399739007605 [2Fe-2S] cluster binding site [ion binding]; other site 399739007606 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 399739007607 SLBB domain; Region: SLBB; pfam10531 399739007608 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 399739007609 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 399739007610 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 399739007611 catalytic loop [active] 399739007612 iron binding site [ion binding]; other site 399739007613 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 399739007614 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 399739007615 [4Fe-4S] binding site [ion binding]; other site 399739007616 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 399739007617 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 399739007618 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 399739007619 4Fe-4S binding domain; Region: Fer4; pfam00037 399739007620 4Fe-4S binding domain; Region: Fer4; pfam00037 399739007621 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 399739007622 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 399739007623 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 399739007624 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 399739007625 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739007626 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 399739007627 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739007628 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 399739007629 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 399739007630 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 399739007631 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 399739007632 S-adenosylmethionine binding site [chemical binding]; other site 399739007633 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739007634 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739007635 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 399739007636 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 399739007637 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 399739007638 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739007639 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739007640 metal binding site [ion binding]; metal-binding site 399739007641 active site 399739007642 I-site; other site 399739007643 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 399739007644 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 399739007645 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 399739007646 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 399739007647 Protein export membrane protein; Region: SecD_SecF; cl14618 399739007648 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739007649 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739007650 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739007651 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 399739007652 dimer interface [polypeptide binding]; other site 399739007653 catalytic triad [active] 399739007654 peroxidatic and resolving cysteines [active] 399739007655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 399739007656 Family of unknown function (DUF490); Region: DUF490; pfam04357 399739007657 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 399739007658 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739007659 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739007660 Surface antigen; Region: Bac_surface_Ag; pfam01103 399739007661 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 399739007662 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 399739007663 putative catalytic site [active] 399739007664 putative phosphate binding site [ion binding]; other site 399739007665 active site 399739007666 metal binding site A [ion binding]; metal-binding site 399739007667 DNA binding site [nucleotide binding] 399739007668 putative AP binding site [nucleotide binding]; other site 399739007669 putative metal binding site B [ion binding]; other site 399739007670 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 399739007671 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739007672 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739007673 ligand binding site [chemical binding]; other site 399739007674 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 399739007675 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739007676 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 399739007677 FAD binding site [chemical binding]; other site 399739007678 substrate binding site [chemical binding]; other site 399739007679 catalytic base [active] 399739007680 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 399739007681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739007682 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 399739007683 substrate binding pocket [chemical binding]; other site 399739007684 dimerization interface [polypeptide binding]; other site 399739007685 Predicted membrane protein [Function unknown]; Region: COG2259 399739007686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739007687 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 399739007688 substrate binding pocket [chemical binding]; other site 399739007689 membrane-bound complex binding site; other site 399739007690 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 399739007691 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 399739007692 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739007693 catalytic residue [active] 399739007694 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399739007695 active site 399739007696 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 399739007697 dimerization interface [polypeptide binding]; other site 399739007698 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739007699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739007700 dimer interface [polypeptide binding]; other site 399739007701 putative CheW interface [polypeptide binding]; other site 399739007702 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 399739007703 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 399739007704 active site 399739007705 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 399739007706 active site 2 [active] 399739007707 active site 1 [active] 399739007708 CHAD domain; Region: CHAD; cl10506 399739007709 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 399739007710 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 399739007711 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399739007712 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399739007713 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 399739007714 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 399739007715 Protein of unknown function DUF58; Region: DUF58; pfam01882 399739007716 MoxR-like ATPases [General function prediction only]; Region: COG0714 399739007717 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 399739007718 Walker A motif; other site 399739007719 ATP binding site [chemical binding]; other site 399739007720 Walker B motif; other site 399739007721 arginine finger; other site 399739007722 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 399739007723 dimerization interface [polypeptide binding]; other site 399739007724 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739007725 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739007726 dimer interface [polypeptide binding]; other site 399739007727 putative CheW interface [polypeptide binding]; other site 399739007728 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 399739007729 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 399739007730 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 399739007731 active site residue [active] 399739007732 selenophosphate synthetase; Provisional; Region: PRK00943 399739007733 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 399739007734 dimerization interface [polypeptide binding]; other site 399739007735 putative ATP binding site [chemical binding]; other site 399739007736 hypothetical protein; Provisional; Region: PRK10279 399739007737 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 399739007738 active site 399739007739 nucleophile elbow; other site 399739007740 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 399739007741 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399739007742 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739007743 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739007744 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399739007745 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739007746 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739007747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739007748 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 399739007749 CoenzymeA binding site [chemical binding]; other site 399739007750 subunit interaction site [polypeptide binding]; other site 399739007751 PHB binding site; other site 399739007752 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 399739007753 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 399739007754 acyl-activating enzyme (AAE) consensus motif; other site 399739007755 putative AMP binding site [chemical binding]; other site 399739007756 putative active site [active] 399739007757 putative CoA binding site [chemical binding]; other site 399739007758 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 399739007759 catalytic core [active] 399739007760 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 399739007761 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 399739007762 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399739007763 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 399739007764 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739007765 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 399739007766 dimerization interface [polypeptide binding]; other site 399739007767 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 399739007768 dimer interface [polypeptide binding]; other site 399739007769 phosphorylation site [posttranslational modification] 399739007770 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 399739007771 ATP binding site [chemical binding]; other site 399739007772 Mg2+ binding site [ion binding]; other site 399739007773 G-X-G motif; other site 399739007774 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739007775 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 399739007776 active site 399739007777 phosphorylation site [posttranslational modification] 399739007778 intermolecular recognition site; other site 399739007779 dimerization interface [polypeptide binding]; other site 399739007780 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 399739007781 active site 1 [active] 399739007782 dimer interface [polypeptide binding]; other site 399739007783 active site 2 [active] 399739007784 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 399739007785 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 399739007786 dimer interface [polypeptide binding]; other site 399739007787 active site 399739007788 HAMP domain; Region: HAMP; pfam00672 399739007789 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739007790 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739007791 dimer interface [polypeptide binding]; other site 399739007792 putative CheW interface [polypeptide binding]; other site 399739007793 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 399739007794 active site 399739007795 catalytic residues [active] 399739007796 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 399739007797 active site 399739007798 Sulfatase; Region: Sulfatase; pfam00884 399739007799 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399739007800 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 399739007801 active site 399739007802 phosphorylation site [posttranslational modification] 399739007803 intermolecular recognition site; other site 399739007804 dimerization interface [polypeptide binding]; other site 399739007805 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 399739007806 DNA binding site [nucleotide binding] 399739007807 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739007808 HAMP domain; Region: HAMP; pfam00672 399739007809 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 399739007810 dimer interface [polypeptide binding]; other site 399739007811 phosphorylation site [posttranslational modification] 399739007812 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 399739007813 ATP binding site [chemical binding]; other site 399739007814 Mg2+ binding site [ion binding]; other site 399739007815 G-X-G motif; other site 399739007816 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 399739007817 S-adenosylmethionine binding site [chemical binding]; other site 399739007818 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 399739007819 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 399739007820 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 399739007821 Amidohydrolase; Region: Amidohydro_2; pfam04909 399739007822 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739007823 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739007824 dimer interface [polypeptide binding]; other site 399739007825 putative CheW interface [polypeptide binding]; other site 399739007826 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 399739007827 Cache domain; Region: Cache_1; pfam02743 399739007828 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 399739007829 Pirin-related protein [General function prediction only]; Region: COG1741 399739007830 Pirin; Region: Pirin; pfam02678 399739007831 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 399739007832 RNA polymerase sigma factor; Provisional; Region: PRK12537 399739007833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739007834 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 399739007835 DNA binding residues [nucleotide binding] 399739007836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 399739007837 Anti-sigma-K factor rskA; Region: RskA; pfam10099 399739007838 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 399739007839 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 399739007840 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739007841 heat shock protein 90; Provisional; Region: PRK05218 399739007842 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 399739007843 ATP binding site [chemical binding]; other site 399739007844 Mg2+ binding site [ion binding]; other site 399739007845 G-X-G motif; other site 399739007846 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 399739007847 CoenzymeA binding site [chemical binding]; other site 399739007848 subunit interaction site [polypeptide binding]; other site 399739007849 PHB binding site; other site 399739007850 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 399739007851 CoenzymeA binding site [chemical binding]; other site 399739007852 subunit interaction site [polypeptide binding]; other site 399739007853 PHB binding site; other site 399739007854 MAPEG family; Region: MAPEG; cl09190 399739007855 Predicted membrane protein [Function unknown]; Region: COG3821 399739007856 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 399739007857 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 399739007858 CoA binding domain; Region: CoA_binding; smart00881 399739007859 CoA-ligase; Region: Ligase_CoA; pfam00549 399739007860 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 399739007861 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 399739007862 CoA-ligase; Region: Ligase_CoA; pfam00549 399739007863 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 399739007864 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 399739007865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739007866 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399739007867 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 399739007868 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 399739007869 E3 interaction surface; other site 399739007870 lipoyl attachment site [posttranslational modification]; other site 399739007871 e3 binding domain; Region: E3_binding; pfam02817 399739007872 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399739007873 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 399739007874 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 399739007875 TPP-binding site [chemical binding]; other site 399739007876 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 399739007877 dimer interface [polypeptide binding]; other site 399739007878 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 399739007879 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 399739007880 L-aspartate oxidase; Provisional; Region: PRK06175 399739007881 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 399739007882 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399739007883 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 399739007884 SdhC subunit interface [polypeptide binding]; other site 399739007885 proximal heme binding site [chemical binding]; other site 399739007886 cardiolipin binding site; other site 399739007887 Iron-sulfur protein interface; other site 399739007888 proximal quinone binding site [chemical binding]; other site 399739007889 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 399739007890 Iron-sulfur protein interface; other site 399739007891 proximal quinone binding site [chemical binding]; other site 399739007892 SdhD (CybS) interface [polypeptide binding]; other site 399739007893 proximal heme binding site [chemical binding]; other site 399739007894 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 399739007895 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 399739007896 dimer interface [polypeptide binding]; other site 399739007897 active site 399739007898 citrylCoA binding site [chemical binding]; other site 399739007899 NADH binding [chemical binding]; other site 399739007900 cationic pore residues; other site 399739007901 oxalacetate/citrate binding site [chemical binding]; other site 399739007902 coenzyme A binding site [chemical binding]; other site 399739007903 catalytic triad [active] 399739007904 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 399739007905 putative lipid binding site [chemical binding]; other site 399739007906 Flagellin N-methylase; Region: FliB; cl00497 399739007907 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 399739007908 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399739007909 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 399739007910 active site 399739007911 catalytic site [active] 399739007912 substrate binding site [chemical binding]; other site 399739007913 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 399739007914 threonine and homoserine efflux system; Provisional; Region: PRK10532 399739007915 EamA-like transporter family; Region: EamA; pfam00892 399739007916 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 399739007917 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399739007918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739007919 Walker A/P-loop; other site 399739007920 ATP binding site [chemical binding]; other site 399739007921 Q-loop/lid; other site 399739007922 ABC transporter signature motif; other site 399739007923 Walker B; other site 399739007924 D-loop; other site 399739007925 H-loop/switch region; other site 399739007926 DoxX-like family; Region: DoxX_3; pfam13781 399739007927 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 399739007928 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 399739007929 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 399739007930 ATP-NAD kinase; Region: NAD_kinase; pfam01513 399739007931 methionine sulfoxide reductase B; Provisional; Region: PRK00222 399739007932 SelR domain; Region: SelR; pfam01641 399739007933 aminotransferase AlaT; Validated; Region: PRK09265 399739007934 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 399739007935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739007936 homodimer interface [polypeptide binding]; other site 399739007937 catalytic residue [active] 399739007938 heat shock protein HtpX; Provisional; Region: PRK05457 399739007939 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 399739007940 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 399739007941 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 399739007942 putative active site [active] 399739007943 metal binding site [ion binding]; metal-binding site 399739007944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739007945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739007946 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 399739007947 CoenzymeA binding site [chemical binding]; other site 399739007948 subunit interaction site [polypeptide binding]; other site 399739007949 PHB binding site; other site 399739007950 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 399739007951 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 399739007952 NADP binding site [chemical binding]; other site 399739007953 dimer interface [polypeptide binding]; other site 399739007954 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 399739007955 putative inner membrane peptidase; Provisional; Region: PRK11778 399739007956 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 399739007957 tandem repeat interface [polypeptide binding]; other site 399739007958 oligomer interface [polypeptide binding]; other site 399739007959 active site residues [active] 399739007960 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 399739007961 catalytic core [active] 399739007962 Putative sterol carrier protein [Lipid metabolism]; Region: COG3255 399739007963 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 399739007964 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 399739007965 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 399739007966 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 399739007967 putative active site [active] 399739007968 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 399739007969 AAA ATPase domain; Region: AAA_16; pfam13191 399739007970 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 399739007971 DNA binding residues [nucleotide binding] 399739007972 dimerization interface [polypeptide binding]; other site 399739007973 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 399739007974 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 399739007975 DNA binding residues [nucleotide binding] 399739007976 dimerization interface [polypeptide binding]; other site 399739007977 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 399739007978 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 399739007979 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 399739007980 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 399739007981 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399739007982 Di-iron ligands [ion binding]; other site 399739007983 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 399739007984 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 399739007985 catalytic loop [active] 399739007986 iron binding site [ion binding]; other site 399739007987 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD...; Region: oxygenase_e_transfer_subunit; cd06213 399739007988 FAD binding pocket [chemical binding]; other site 399739007989 FAD binding motif [chemical binding]; other site 399739007990 phosphate binding motif [ion binding]; other site 399739007991 beta-alpha-beta structure motif; other site 399739007992 NAD binding pocket [chemical binding]; other site 399739007993 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739007994 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739007995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739007996 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 399739007997 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 399739007998 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 399739007999 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 399739008000 Active Sites [active] 399739008001 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 399739008002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739008003 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 399739008004 substrate binding site [chemical binding]; other site 399739008005 dimerization interface [polypeptide binding]; other site 399739008006 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 399739008007 Ligand Binding Site [chemical binding]; other site 399739008008 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 399739008009 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 399739008010 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 399739008011 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 399739008012 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 399739008013 catalytic residues [active] 399739008014 PilZ domain; Region: PilZ; pfam07238 399739008015 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 399739008016 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399739008017 Predicted acetyltransferase [General function prediction only]; Region: COG2388 399739008018 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 399739008019 L,D-transpeptidase; Provisional; Region: PRK10190 399739008020 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399739008021 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 399739008022 active site 399739008023 catalytic triad [active] 399739008024 oxyanion hole [active] 399739008025 switch loop; other site 399739008026 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 399739008027 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399739008028 Walker A/P-loop; other site 399739008029 ATP binding site [chemical binding]; other site 399739008030 Q-loop/lid; other site 399739008031 ABC transporter signature motif; other site 399739008032 Walker B; other site 399739008033 D-loop; other site 399739008034 H-loop/switch region; other site 399739008035 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 399739008036 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 399739008037 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 399739008038 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 399739008039 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399739008040 2'-5' RNA ligase; Provisional; Region: PRK15124 399739008041 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 399739008042 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 399739008043 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399739008044 lipase chaperone; Provisional; Region: PRK01294 399739008045 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 399739008046 Transcriptional regulators [Transcription]; Region: PurR; COG1609 399739008047 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399739008048 DNA binding site [nucleotide binding] 399739008049 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 399739008050 putative ligand binding site [chemical binding]; other site 399739008051 putative dimerization interface [polypeptide binding]; other site 399739008052 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739008053 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739008054 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 399739008055 DctM-like transporters; Region: DctM; pfam06808 399739008056 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 399739008057 AAA domain; Region: AAA_33; pfam13671 399739008058 ATP-binding site [chemical binding]; other site 399739008059 Gluconate-6-phosphate binding site [chemical binding]; other site 399739008060 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 399739008061 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399739008062 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 399739008063 N-terminal plug; other site 399739008064 ligand-binding site [chemical binding]; other site 399739008065 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 399739008066 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 399739008067 active site 399739008068 HIGH motif; other site 399739008069 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 399739008070 KMSKS motif; other site 399739008071 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 399739008072 tRNA binding surface [nucleotide binding]; other site 399739008073 anticodon binding site; other site 399739008074 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 399739008075 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739008076 active site 399739008077 HIGH motif; other site 399739008078 nucleotide binding site [chemical binding]; other site 399739008079 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 399739008080 KMSKS motif; other site 399739008081 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 399739008082 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 399739008083 substrate binding site [chemical binding]; other site 399739008084 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399739008085 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 399739008086 putative active site [active] 399739008087 putative metal binding site [ion binding]; other site 399739008088 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 399739008089 active site 399739008090 dinuclear metal binding site [ion binding]; other site 399739008091 dimerization interface [polypeptide binding]; other site 399739008092 universal stress protein UspE; Provisional; Region: PRK11175 399739008093 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 399739008094 Ligand Binding Site [chemical binding]; other site 399739008095 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 399739008096 Ligand Binding Site [chemical binding]; other site 399739008097 Predicted Fe-S protein [General function prediction only]; Region: COG3313 399739008098 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 399739008099 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 399739008100 substrate binding site [chemical binding]; other site 399739008101 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 399739008102 substrate binding site [chemical binding]; other site 399739008103 ligand binding site [chemical binding]; other site 399739008104 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 399739008105 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 399739008106 NMT1-like family; Region: NMT1_2; pfam13379 399739008107 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 399739008108 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 399739008109 active site 399739008110 phosphorylation site [posttranslational modification] 399739008111 intermolecular recognition site; other site 399739008112 dimerization interface [polypeptide binding]; other site 399739008113 ANTAR domain; Region: ANTAR; pfam03861 399739008114 Alginate lyase; Region: Alginate_lyase2; pfam08787 399739008115 aminotransferase; Validated; Region: PRK08175 399739008116 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 399739008117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008118 homodimer interface [polypeptide binding]; other site 399739008119 catalytic residue [active] 399739008120 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 399739008121 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739008122 putative acyl-acceptor binding pocket; other site 399739008123 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 399739008124 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 399739008125 catalytic triad [active] 399739008126 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 399739008127 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 399739008128 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 399739008129 substrate binding site [chemical binding]; other site 399739008130 oxyanion hole (OAH) forming residues; other site 399739008131 trimer interface [polypeptide binding]; other site 399739008132 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399739008133 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399739008134 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 399739008135 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 399739008136 dimer interface [polypeptide binding]; other site 399739008137 active site 399739008138 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 399739008139 active site residue [active] 399739008140 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399739008141 Cytochrome c; Region: Cytochrom_C; pfam00034 399739008142 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 399739008143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739008144 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399739008145 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 399739008146 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399739008147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 399739008148 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 399739008149 Uncharacterized conserved protein [Function unknown]; Region: COG2308 399739008150 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 399739008151 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 399739008152 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 399739008153 Low-spin heme binding site [chemical binding]; other site 399739008154 Putative water exit pathway; other site 399739008155 Binuclear center (active site) [active] 399739008156 Putative proton exit pathway; other site 399739008157 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 399739008158 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 399739008159 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 399739008160 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 399739008161 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739008162 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739008163 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 399739008164 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 399739008165 Low-spin heme binding site [chemical binding]; other site 399739008166 Putative water exit pathway; other site 399739008167 Binuclear center (active site) [active] 399739008168 Putative proton exit pathway; other site 399739008169 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 399739008170 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 399739008171 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 399739008172 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 399739008173 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399739008174 Cytochrome c; Region: Cytochrom_C; pfam00034 399739008175 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 399739008176 4Fe-4S binding domain; Region: Fer4_5; pfam12801 399739008177 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 399739008178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 399739008179 FixH; Region: FixH; pfam05751 399739008180 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 399739008181 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399739008182 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 399739008183 metal-binding site [ion binding] 399739008184 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399739008185 Soluble P-type ATPase [General function prediction only]; Region: COG4087 399739008186 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 399739008187 Uncharacterized conserved protein [Function unknown]; Region: COG2836 399739008188 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 399739008189 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 399739008190 FeS/SAM binding site; other site 399739008191 HemN C-terminal domain; Region: HemN_C; pfam06969 399739008192 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 399739008193 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 399739008194 ligand binding site [chemical binding]; other site 399739008195 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 399739008196 putative switch regulator; other site 399739008197 non-specific DNA interactions [nucleotide binding]; other site 399739008198 DNA binding site [nucleotide binding] 399739008199 sequence specific DNA binding site [nucleotide binding]; other site 399739008200 putative cAMP binding site [chemical binding]; other site 399739008201 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739008202 active site 399739008203 Ion transport protein; Region: Ion_trans; pfam00520 399739008204 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 399739008205 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 399739008206 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 399739008207 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 399739008208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 399739008209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739008210 short chain dehydrogenase; Provisional; Region: PRK05650 399739008211 NAD(P) binding site [chemical binding]; other site 399739008212 active site 399739008213 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 399739008214 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 399739008215 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 399739008216 putative catalytic residue [active] 399739008217 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 399739008218 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 399739008219 putative NAD(P) binding site [chemical binding]; other site 399739008220 active site 399739008221 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739008222 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739008223 Protein of unknown function, DUF480; Region: DUF480; pfam04337 399739008224 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 399739008225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399739008226 MarR family; Region: MarR; pfam01047 399739008227 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 399739008228 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 399739008229 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 399739008230 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739008231 putative aminotransferase; Validated; Region: PRK07480 399739008232 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 399739008233 inhibitor-cofactor binding pocket; inhibition site 399739008234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008235 catalytic residue [active] 399739008236 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739008237 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739008238 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399739008239 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 399739008240 non-specific DNA binding site [nucleotide binding]; other site 399739008241 salt bridge; other site 399739008242 sequence-specific DNA binding site [nucleotide binding]; other site 399739008243 Cupin domain; Region: Cupin_2; pfam07883 399739008244 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739008245 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739008246 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 399739008247 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 399739008248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739008249 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739008250 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739008251 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739008252 active site 399739008253 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 399739008254 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 399739008255 conserved cys residue [active] 399739008256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739008257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739008258 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 399739008259 active site residue [active] 399739008260 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739008261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739008262 Coenzyme A binding pocket [chemical binding]; other site 399739008263 recombination protein RecR; Reviewed; Region: recR; PRK00076 399739008264 RecR protein; Region: RecR; pfam02132 399739008265 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 399739008266 putative active site [active] 399739008267 putative metal-binding site [ion binding]; other site 399739008268 tetramer interface [polypeptide binding]; other site 399739008269 hypothetical protein; Validated; Region: PRK00153 399739008270 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 399739008271 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 399739008272 Walker A motif; other site 399739008273 ATP binding site [chemical binding]; other site 399739008274 Walker B motif; other site 399739008275 arginine finger; other site 399739008276 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 399739008277 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 399739008278 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 399739008279 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399739008280 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739008281 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 399739008282 dimerization interface [polypeptide binding]; other site 399739008283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739008284 dimer interface [polypeptide binding]; other site 399739008285 putative CheW interface [polypeptide binding]; other site 399739008286 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 399739008287 IHF - DNA interface [nucleotide binding]; other site 399739008288 IHF dimer interface [polypeptide binding]; other site 399739008289 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399739008290 Sel1-like repeats; Region: SEL1; smart00671 399739008291 Sel1-like repeats; Region: SEL1; smart00671 399739008292 Sel1-like repeats; Region: SEL1; smart00671 399739008293 Cache domain; Region: Cache_1; pfam02743 399739008294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739008295 metal binding site [ion binding]; metal-binding site 399739008296 active site 399739008297 I-site; other site 399739008298 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 399739008299 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 399739008300 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 399739008301 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 399739008302 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 399739008303 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 399739008304 Outer membrane efflux protein; Region: OEP; pfam02321 399739008305 Outer membrane efflux protein; Region: OEP; pfam02321 399739008306 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 399739008307 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 399739008308 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739008309 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 399739008310 Isochorismatase family; Region: Isochorismatase; pfam00857 399739008311 catalytic triad [active] 399739008312 dimer interface [polypeptide binding]; other site 399739008313 conserved cis-peptide bond; other site 399739008314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 399739008315 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 399739008316 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 399739008317 active site 399739008318 Transmembrane secretion effector; Region: MFS_3; pfam05977 399739008319 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 399739008320 putative substrate translocation pore; other site 399739008321 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 399739008322 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 399739008323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399739008324 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 399739008325 ATP binding site [chemical binding]; other site 399739008326 Mg2+ binding site [ion binding]; other site 399739008327 G-X-G motif; other site 399739008328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739008329 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 399739008330 active site 399739008331 phosphorylation site [posttranslational modification] 399739008332 intermolecular recognition site; other site 399739008333 dimerization interface [polypeptide binding]; other site 399739008334 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 399739008335 DNA binding residues [nucleotide binding] 399739008336 dimerization interface [polypeptide binding]; other site 399739008337 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739008338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739008339 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739008340 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739008341 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 399739008342 putative C-terminal domain interface [polypeptide binding]; other site 399739008343 putative GSH binding site (G-site) [chemical binding]; other site 399739008344 putative dimer interface [polypeptide binding]; other site 399739008345 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 399739008346 N-terminal domain interface [polypeptide binding]; other site 399739008347 dimer interface [polypeptide binding]; other site 399739008348 substrate binding pocket (H-site) [chemical binding]; other site 399739008349 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 399739008350 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 399739008351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008352 homodimer interface [polypeptide binding]; other site 399739008353 catalytic residue [active] 399739008354 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399739008355 MarR family; Region: MarR_2; pfam12802 399739008356 RNA polymerase sigma factor; Reviewed; Region: PRK12523 399739008357 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739008358 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 399739008359 DNA binding residues [nucleotide binding] 399739008360 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 399739008361 FecR protein; Region: FecR; pfam04773 399739008362 Secretin and TonB N terminus short domain; Region: STN; smart00965 399739008363 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 399739008364 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 399739008365 N-terminal plug; other site 399739008366 ligand-binding site [chemical binding]; other site 399739008367 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399739008368 benzoate transporter; Region: benE; TIGR00843 399739008369 Benzoate membrane transport protein; Region: BenE; pfam03594 399739008370 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 399739008371 Sodium Bile acid symporter family; Region: SBF; cl17470 399739008372 short chain dehydrogenase; Provisional; Region: PRK06172 399739008373 classical (c) SDRs; Region: SDR_c; cd05233 399739008374 NAD(P) binding site [chemical binding]; other site 399739008375 active site 399739008376 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 399739008377 active site 399739008378 dimer interface [polypeptide binding]; other site 399739008379 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 399739008380 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 399739008381 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 399739008382 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 399739008383 CAAX protease self-immunity; Region: Abi; pfam02517 399739008384 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 399739008385 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 399739008386 substrate binding pocket [chemical binding]; other site 399739008387 membrane-bound complex binding site; other site 399739008388 hinge residues; other site 399739008389 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739008390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739008391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739008392 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 399739008393 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 399739008394 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 399739008395 NAD(P) binding site [chemical binding]; other site 399739008396 substrate binding site [chemical binding]; other site 399739008397 homotetramer interface [polypeptide binding]; other site 399739008398 active site 399739008399 homodimer interface [polypeptide binding]; other site 399739008400 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 399739008401 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399739008402 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399739008403 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739008404 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739008405 active site 399739008406 enoyl-CoA hydratase; Provisional; Region: PRK05995 399739008407 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 399739008408 substrate binding site [chemical binding]; other site 399739008409 oxyanion hole (OAH) forming residues; other site 399739008410 trimer interface [polypeptide binding]; other site 399739008411 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 399739008412 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739008413 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399739008414 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 399739008415 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 399739008416 carboxyltransferase (CT) interaction site; other site 399739008417 biotinylation site [posttranslational modification]; other site 399739008418 short chain dehydrogenase; Provisional; Region: PRK08278 399739008419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739008420 NAD(P) binding site [chemical binding]; other site 399739008421 active site 399739008422 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 399739008423 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399739008424 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 399739008425 acyl-activating enzyme (AAE) consensus motif; other site 399739008426 putative AMP binding site [chemical binding]; other site 399739008427 putative active site [active] 399739008428 putative CoA binding site [chemical binding]; other site 399739008429 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 399739008430 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739008431 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 399739008432 DNA binding residues [nucleotide binding] 399739008433 von Willebrand factor; Region: vWF_A; pfam12450 399739008434 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 399739008435 VWA subgroup: 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_subgroup; cd01465 399739008436 metal ion-dependent adhesion site (MIDAS); other site 399739008437 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 399739008438 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 399739008439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739008440 DNA-binding site [nucleotide binding]; DNA binding site 399739008441 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 399739008442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008443 homodimer interface [polypeptide binding]; other site 399739008444 catalytic residue [active] 399739008445 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739008446 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739008447 ligand binding site [chemical binding]; other site 399739008448 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 399739008449 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 399739008450 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 399739008451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739008452 substrate binding pocket [chemical binding]; other site 399739008453 membrane-bound complex binding site; other site 399739008454 hinge residues; other site 399739008455 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 399739008456 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739008457 nucleophilic elbow; other site 399739008458 catalytic triad; other site 399739008459 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 399739008460 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 399739008461 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 399739008462 Ligand binding site [chemical binding]; other site 399739008463 Electron transfer flavoprotein domain; Region: ETF; pfam01012 399739008464 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 399739008465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399739008466 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 399739008467 oxidoreductase; Validated; Region: PRK05717 399739008468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739008469 NAD(P) binding site [chemical binding]; other site 399739008470 active site 399739008471 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 399739008472 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 399739008473 homodimer interface [polypeptide binding]; other site 399739008474 substrate-cofactor binding pocket; other site 399739008475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008476 catalytic residue [active] 399739008477 amidophosphoribosyltransferase; Provisional; Region: PRK09246 399739008478 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 399739008479 active site 399739008480 tetramer interface [polypeptide binding]; other site 399739008481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739008482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 399739008483 active site 399739008484 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 399739008485 Colicin V production protein; Region: Colicin_V; cl00567 399739008486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 399739008487 Sporulation related domain; Region: SPOR; pfam05036 399739008488 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 399739008489 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739008490 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399739008491 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 399739008492 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 399739008493 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 399739008494 active site 399739008495 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 399739008496 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 399739008497 dimerization interface 3.5A [polypeptide binding]; other site 399739008498 active site 399739008499 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 399739008500 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739008501 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 399739008502 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 399739008503 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 399739008504 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 399739008505 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 399739008506 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 399739008507 tartrate dehydrogenase; Region: TTC; TIGR02089 399739008508 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 399739008509 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 399739008510 substrate binding site [chemical binding]; other site 399739008511 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 399739008512 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 399739008513 substrate binding site [chemical binding]; other site 399739008514 ligand binding site [chemical binding]; other site 399739008515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739008516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739008517 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 399739008518 dimerization interface [polypeptide binding]; other site 399739008519 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 399739008520 PAS fold; Region: PAS_3; pfam08447 399739008521 putative active site [active] 399739008522 heme pocket [chemical binding]; other site 399739008523 PAS domain S-box; Region: sensory_box; TIGR00229 399739008524 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 399739008525 putative active site [active] 399739008526 heme pocket [chemical binding]; other site 399739008527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739008528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739008529 metal binding site [ion binding]; metal-binding site 399739008530 active site 399739008531 I-site; other site 399739008532 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 399739008533 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 399739008534 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 399739008535 putative dimer interface [polypeptide binding]; other site 399739008536 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 399739008537 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 399739008538 FMN binding site [chemical binding]; other site 399739008539 active site 399739008540 catalytic residues [active] 399739008541 substrate binding site [chemical binding]; other site 399739008542 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 399739008543 active site 399739008544 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739008545 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399739008546 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739008547 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739008548 metal binding site [ion binding]; metal-binding site 399739008549 active site 399739008550 I-site; other site 399739008551 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739008552 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739008553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739008554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739008555 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 399739008556 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 399739008557 HIGH motif; other site 399739008558 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 399739008559 active site 399739008560 KMSKS motif; other site 399739008561 LysR family transcriptional regulator; Provisional; Region: PRK14997 399739008562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739008563 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 399739008564 putative effector binding pocket; other site 399739008565 dimerization interface [polypeptide binding]; other site 399739008566 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 399739008567 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739008568 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 399739008569 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739008570 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 399739008571 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 399739008572 putative substrate translocation pore; other site 399739008573 excinuclease ABC subunit B; Provisional; Region: PRK05298 399739008574 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 399739008575 ATP binding site [chemical binding]; other site 399739008576 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 399739008577 nucleotide binding region [chemical binding]; other site 399739008578 ATP-binding site [chemical binding]; other site 399739008579 Ultra-violet resistance protein B; Region: UvrB; pfam12344 399739008580 UvrB/uvrC motif; Region: UVR; pfam02151 399739008581 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 399739008582 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 399739008583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008584 homodimer interface [polypeptide binding]; other site 399739008585 catalytic residue [active] 399739008586 HemK family putative methylases; Region: hemK_fam; TIGR00536 399739008587 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 399739008588 S-adenosylmethionine binding site [chemical binding]; other site 399739008589 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 399739008590 Citrate transporter; Region: CitMHS; pfam03600 399739008591 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 399739008592 Isochorismatase family; Region: Isochorismatase; pfam00857 399739008593 catalytic triad [active] 399739008594 conserved cis-peptide bond; other site 399739008595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 399739008596 Smr domain; Region: Smr; pfam01713 399739008597 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 399739008598 homodecamer interface [polypeptide binding]; other site 399739008599 GTP cyclohydrolase I; Provisional; Region: PLN03044 399739008600 active site 399739008601 putative catalytic site residues [active] 399739008602 zinc binding site [ion binding]; other site 399739008603 GTP-CH-I/GFRP interaction surface; other site 399739008604 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 399739008605 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739008606 Ligase N family; Region: LIGANc; smart00532 399739008607 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 399739008608 nucleotide binding pocket [chemical binding]; other site 399739008609 K-X-D-G motif; other site 399739008610 catalytic site [active] 399739008611 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 399739008612 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 399739008613 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 399739008614 Dimer interface [polypeptide binding]; other site 399739008615 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 399739008616 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 399739008617 FtsZ protein binding site [polypeptide binding]; other site 399739008618 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 399739008619 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 399739008620 Walker A/P-loop; other site 399739008621 ATP binding site [chemical binding]; other site 399739008622 Q-loop/lid; other site 399739008623 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 399739008624 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 399739008625 ABC transporter signature motif; other site 399739008626 Walker B; other site 399739008627 D-loop; other site 399739008628 H-loop/switch region; other site 399739008629 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739008630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739008631 DNA-binding site [nucleotide binding]; DNA binding site 399739008632 FCD domain; Region: FCD; pfam07729 399739008633 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 399739008634 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399739008635 Di-iron ligands [ion binding]; other site 399739008636 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 399739008637 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 399739008638 catalytic loop [active] 399739008639 iron binding site [ion binding]; other site 399739008640 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399739008641 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 399739008642 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 399739008643 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 399739008644 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739008645 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 399739008646 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 399739008647 XdhC Rossmann domain; Region: XdhC_C; pfam13478 399739008648 guanine deaminase; Provisional; Region: PRK09228 399739008649 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 399739008650 active site 399739008651 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739008652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739008653 DNA-binding site [nucleotide binding]; DNA binding site 399739008654 FCD domain; Region: FCD; pfam07729 399739008655 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 399739008656 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 399739008657 active site 399739008658 homotetramer interface [polypeptide binding]; other site 399739008659 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 399739008660 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 399739008661 active site 399739008662 catalytic site [active] 399739008663 tetramer interface [polypeptide binding]; other site 399739008664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 399739008665 ureidoglycolate hydrolase; Provisional; Region: PRK03606 399739008666 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 399739008667 Predicted membrane protein [Function unknown]; Region: COG3748 399739008668 Protein of unknown function (DUF989); Region: DUF989; pfam06181 399739008669 Cytochrome c; Region: Cytochrom_C; pfam00034 399739008670 xanthine permease; Region: pbuX; TIGR03173 399739008671 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 399739008672 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 399739008673 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 399739008674 Na binding site [ion binding]; other site 399739008675 putative substrate binding site [chemical binding]; other site 399739008676 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739008677 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 399739008678 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 399739008679 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 399739008680 FeS/SAM binding site; other site 399739008681 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 399739008682 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 399739008683 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739008684 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 399739008685 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 399739008686 glyoxylate carboligase; Provisional; Region: PRK11269 399739008687 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 399739008688 PYR/PP interface [polypeptide binding]; other site 399739008689 dimer interface [polypeptide binding]; other site 399739008690 TPP binding site [chemical binding]; other site 399739008691 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399739008692 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 399739008693 TPP-binding site [chemical binding]; other site 399739008694 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 399739008695 tartronate semialdehyde reductase; Provisional; Region: PRK15059 399739008696 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399739008697 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 399739008698 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 399739008699 MOFRL family; Region: MOFRL; pfam05161 399739008700 pyruvate kinase; Provisional; Region: PRK06247 399739008701 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 399739008702 domain interfaces; other site 399739008703 active site 399739008704 Urea transporter; Region: UT; pfam03253 399739008705 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 399739008706 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 399739008707 active site 399739008708 DNA binding site [nucleotide binding] 399739008709 Int/Topo IB signature motif; other site 399739008710 catalytic residues [active] 399739008711 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 399739008712 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399739008713 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739008714 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 399739008715 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 399739008716 Ion transport protein; Region: Ion_trans; pfam00520 399739008717 Ion channel; Region: Ion_trans_2; pfam07885 399739008718 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 399739008719 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739008720 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 399739008721 transmembrane helices; other site 399739008722 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 399739008723 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 399739008724 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 399739008725 binding surface 399739008726 TPR motif; other site 399739008727 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 399739008728 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 399739008729 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399739008730 catalytic residues [active] 399739008731 central insert; other site 399739008732 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 399739008733 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 399739008734 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 399739008735 heme exporter protein CcmC; Region: ccmC; TIGR01191 399739008736 CcmB protein; Region: CcmB; cl17444 399739008737 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 399739008738 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 399739008739 Walker A/P-loop; other site 399739008740 ATP binding site [chemical binding]; other site 399739008741 Q-loop/lid; other site 399739008742 ABC transporter signature motif; other site 399739008743 Walker B; other site 399739008744 D-loop; other site 399739008745 H-loop/switch region; other site 399739008746 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 399739008747 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 399739008748 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 399739008749 active site residue [active] 399739008750 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 399739008751 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 399739008752 putative CheA interaction surface; other site 399739008753 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 399739008754 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399739008755 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 399739008756 P-loop; other site 399739008757 Magnesium ion binding site [ion binding]; other site 399739008758 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 399739008759 Magnesium ion binding site [ion binding]; other site 399739008760 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 399739008761 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 399739008762 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739008763 ligand binding site [chemical binding]; other site 399739008764 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 399739008765 flagellar motor protein; Reviewed; Region: motC; PRK09109 399739008766 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 399739008767 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 399739008768 active site 399739008769 phosphorylation site [posttranslational modification] 399739008770 intermolecular recognition site; other site 399739008771 dimerization interface [polypeptide binding]; other site 399739008772 CheB methylesterase; Region: CheB_methylest; pfam01339 399739008773 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 399739008774 putative binding surface; other site 399739008775 active site 399739008776 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 399739008777 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 399739008778 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 399739008779 ATP binding site [chemical binding]; other site 399739008780 Mg2+ binding site [ion binding]; other site 399739008781 G-X-G motif; other site 399739008782 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 399739008783 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 399739008784 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 399739008785 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 399739008786 active site 399739008787 phosphorylation site [posttranslational modification] 399739008788 intermolecular recognition site; other site 399739008789 dimerization interface [polypeptide binding]; other site 399739008790 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 399739008791 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739008792 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399739008793 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 399739008794 DNA binding residues [nucleotide binding] 399739008795 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 399739008796 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 399739008797 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 399739008798 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 399739008799 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 399739008800 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 399739008801 FHIPEP family; Region: FHIPEP; pfam00771 399739008802 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 399739008803 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 399739008804 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 399739008805 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 399739008806 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 399739008807 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 399739008808 flagellar motor switch protein; Validated; Region: fliN; PRK05698 399739008809 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 399739008810 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 399739008811 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 399739008812 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 399739008813 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 399739008814 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 399739008815 putative binding surface; other site 399739008816 active site 399739008817 Response regulator receiver domain; Region: Response_reg; pfam00072 399739008818 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 399739008819 active site 399739008820 phosphorylation site [posttranslational modification] 399739008821 intermolecular recognition site; other site 399739008822 dimerization interface [polypeptide binding]; other site 399739008823 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 399739008824 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 399739008825 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 399739008826 ATP binding site [chemical binding]; other site 399739008827 Mg2+ binding site [ion binding]; other site 399739008828 G-X-G motif; other site 399739008829 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 399739008830 anti sigma factor interaction site; other site 399739008831 regulatory phosphorylation site [posttranslational modification]; other site 399739008832 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 399739008833 Flagellar FliJ protein; Region: FliJ; pfam02050 399739008834 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 399739008835 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 399739008836 Walker A motif/ATP binding site; other site 399739008837 Walker B motif; other site 399739008838 flagellar assembly protein H; Validated; Region: fliH; PRK05687 399739008839 Flagellar assembly protein FliH; Region: FliH; pfam02108 399739008840 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 399739008841 MgtE intracellular N domain; Region: MgtE_N; smart00924 399739008842 FliG C-terminal domain; Region: FliG_C; pfam01706 399739008843 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 399739008844 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 399739008845 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 399739008846 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 399739008847 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739008848 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 399739008849 active site 399739008850 phosphorylation site [posttranslational modification] 399739008851 intermolecular recognition site; other site 399739008852 dimerization interface [polypeptide binding]; other site 399739008853 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 399739008854 Walker A motif; other site 399739008855 ATP binding site [chemical binding]; other site 399739008856 Walker B motif; other site 399739008857 arginine finger; other site 399739008858 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 399739008859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739008860 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 399739008861 dimer interface [polypeptide binding]; other site 399739008862 phosphorylation site [posttranslational modification] 399739008863 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 399739008864 ATP binding site [chemical binding]; other site 399739008865 Mg2+ binding site [ion binding]; other site 399739008866 G-X-G motif; other site 399739008867 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739008868 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 399739008869 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 399739008870 Walker A motif; other site 399739008871 ATP binding site [chemical binding]; other site 399739008872 Walker B motif; other site 399739008873 arginine finger; other site 399739008874 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739008875 flagellar protein FliS; Validated; Region: fliS; PRK05685 399739008876 Flagellar protein FliS; Region: FliS; cl00654 399739008877 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 399739008878 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 399739008879 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 399739008880 FlaG protein; Region: FlaG; pfam03646 399739008881 flagellin; Provisional; Region: PRK12806 399739008882 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399739008883 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399739008884 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399739008885 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 399739008886 S-adenosylmethionine binding site [chemical binding]; other site 399739008887 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 399739008888 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 399739008889 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399739008890 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 399739008891 Probable Catalytic site; other site 399739008892 metal-binding site 399739008893 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 399739008894 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 399739008895 active site 399739008896 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 399739008897 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399739008898 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399739008899 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 399739008900 S-adenosylmethionine binding site [chemical binding]; other site 399739008901 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 399739008902 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399739008903 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399739008904 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 399739008905 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739008906 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 399739008907 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 399739008908 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 399739008909 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 399739008910 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 399739008911 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 399739008912 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 399739008913 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 399739008914 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399739008915 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739008916 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 399739008917 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 399739008918 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 399739008919 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399739008920 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 399739008921 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 399739008922 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739008923 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 399739008924 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 399739008925 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 399739008926 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 399739008927 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399739008928 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399739008929 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 399739008930 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 399739008931 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 399739008932 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 399739008933 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 399739008934 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399739008935 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739008936 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 399739008937 active site 399739008938 phosphorylation site [posttranslational modification] 399739008939 intermolecular recognition site; other site 399739008940 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 399739008941 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 399739008942 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 399739008943 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 399739008944 FlgN protein; Region: FlgN; cl09176 399739008945 Flagellar regulator YcgR; Region: YcgR; pfam07317 399739008946 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 399739008947 PilZ domain; Region: PilZ; pfam07238 399739008948 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 399739008949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739008950 putative substrate translocation pore; other site 399739008951 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739008952 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739008953 serine/threonine transporter SstT; Provisional; Region: PRK13628 399739008954 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399739008955 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 399739008956 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399739008957 Walker A/P-loop; other site 399739008958 ATP binding site [chemical binding]; other site 399739008959 Q-loop/lid; other site 399739008960 ABC transporter signature motif; other site 399739008961 Walker B; other site 399739008962 D-loop; other site 399739008963 H-loop/switch region; other site 399739008964 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 399739008965 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 399739008966 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 399739008967 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 399739008968 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 399739008969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 399739008970 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 399739008971 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 399739008972 siderophore binding site; other site 399739008973 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 399739008974 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 399739008975 ABC-ATPase subunit interface; other site 399739008976 dimer interface [polypeptide binding]; other site 399739008977 putative PBP binding regions; other site 399739008978 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 399739008979 ABC-ATPase subunit interface; other site 399739008980 dimer interface [polypeptide binding]; other site 399739008981 putative PBP binding regions; other site 399739008982 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 399739008983 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 399739008984 N-terminal plug; other site 399739008985 ligand-binding site [chemical binding]; other site 399739008986 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 399739008987 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 399739008988 inhibitor-cofactor binding pocket; inhibition site 399739008989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739008990 catalytic residue [active] 399739008991 Condensation domain; Region: Condensation; pfam00668 399739008992 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739008993 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 399739008994 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739008995 acyl-activating enzyme (AAE) consensus motif; other site 399739008996 AMP binding site [chemical binding]; other site 399739008997 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739008998 Condensation domain; Region: Condensation; pfam00668 399739008999 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 399739009000 Condensation domain; Region: Condensation; pfam00668 399739009001 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739009002 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 399739009003 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739009004 acyl-activating enzyme (AAE) consensus motif; other site 399739009005 AMP binding site [chemical binding]; other site 399739009006 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009007 Condensation domain; Region: Condensation; pfam00668 399739009008 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739009009 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 399739009010 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739009011 acyl-activating enzyme (AAE) consensus motif; other site 399739009012 AMP binding site [chemical binding]; other site 399739009013 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009014 Condensation domain; Region: Condensation; pfam00668 399739009015 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739009016 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 399739009017 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739009018 acyl-activating enzyme (AAE) consensus motif; other site 399739009019 AMP binding site [chemical binding]; other site 399739009020 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009021 Condensation domain; Region: Condensation; pfam00668 399739009022 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739009023 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 399739009024 Thioesterase domain; Region: Thioesterase; pfam00975 399739009025 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 399739009026 acyl-CoA synthetase; Validated; Region: PRK05850 399739009027 acyl-activating enzyme (AAE) consensus motif; other site 399739009028 active site 399739009029 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009030 Condensation domain; Region: Condensation; pfam00668 399739009031 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 399739009032 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 399739009033 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739009034 acyl-activating enzyme (AAE) consensus motif; other site 399739009035 AMP binding site [chemical binding]; other site 399739009036 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009037 Condensation domain; Region: Condensation; pfam00668 399739009038 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 399739009039 Condensation domain; Region: Condensation; pfam00668 399739009040 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 399739009041 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 399739009042 acyl-activating enzyme (AAE) consensus motif; other site 399739009043 AMP binding site [chemical binding]; other site 399739009044 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399739009045 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 399739009046 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739009047 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 399739009048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739009049 Walker A/P-loop; other site 399739009050 ATP binding site [chemical binding]; other site 399739009051 Q-loop/lid; other site 399739009052 ABC transporter signature motif; other site 399739009053 Walker B; other site 399739009054 D-loop; other site 399739009055 H-loop/switch region; other site 399739009056 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 399739009057 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739009058 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 399739009059 DNA binding residues [nucleotide binding] 399739009060 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 399739009061 Na2 binding site [ion binding]; other site 399739009062 putative substrate binding site 1 [chemical binding]; other site 399739009063 Na binding site 1 [ion binding]; other site 399739009064 putative substrate binding site 2 [chemical binding]; other site 399739009065 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 399739009066 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 399739009067 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 399739009068 NAD binding site [chemical binding]; other site 399739009069 Phe binding site; other site 399739009070 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 399739009071 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 399739009072 dimer interface [polypeptide binding]; other site 399739009073 PYR/PP interface [polypeptide binding]; other site 399739009074 TPP binding site [chemical binding]; other site 399739009075 substrate binding site [chemical binding]; other site 399739009076 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 399739009077 TPP-binding site; other site 399739009078 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 399739009079 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739009080 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 399739009081 putative DNA binding site [nucleotide binding]; other site 399739009082 putative Zn2+ binding site [ion binding]; other site 399739009083 AsnC family; Region: AsnC_trans_reg; pfam01037 399739009084 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 399739009085 putative hydrolase; Provisional; Region: PRK02113 399739009086 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 399739009087 AAA domain; Region: AAA_18; pfam13238 399739009088 active site 399739009089 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 399739009090 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 399739009091 active site 399739009092 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 399739009093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739009094 Walker A/P-loop; other site 399739009095 ATP binding site [chemical binding]; other site 399739009096 Q-loop/lid; other site 399739009097 ABC transporter signature motif; other site 399739009098 Walker B; other site 399739009099 D-loop; other site 399739009100 H-loop/switch region; other site 399739009101 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 399739009102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739009103 Walker A/P-loop; other site 399739009104 ATP binding site [chemical binding]; other site 399739009105 Q-loop/lid; other site 399739009106 ABC transporter signature motif; other site 399739009107 Walker B; other site 399739009108 D-loop; other site 399739009109 H-loop/switch region; other site 399739009110 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399739009111 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 399739009112 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 399739009113 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 399739009114 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 399739009115 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 399739009116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739009117 DNA-binding site [nucleotide binding]; DNA binding site 399739009118 UTRA domain; Region: UTRA; pfam07702 399739009119 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 399739009120 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 399739009121 dimer interface [polypeptide binding]; other site 399739009122 conserved gate region; other site 399739009123 ABC-ATPase subunit interface; other site 399739009124 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 399739009125 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 399739009126 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 399739009127 Walker A/P-loop; other site 399739009128 ATP binding site [chemical binding]; other site 399739009129 Q-loop/lid; other site 399739009130 ABC transporter signature motif; other site 399739009131 Walker B; other site 399739009132 D-loop; other site 399739009133 H-loop/switch region; other site 399739009134 Arc-like DNA binding domain; Region: Arc; pfam03869 399739009135 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 399739009136 oxaloacetate decarboxylase; Provisional; Region: PRK14040 399739009137 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 399739009138 active site 399739009139 catalytic residues [active] 399739009140 metal binding site [ion binding]; metal-binding site 399739009141 homodimer binding site [polypeptide binding]; other site 399739009142 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 399739009143 carboxyltransferase (CT) interaction site; other site 399739009144 biotinylation site [posttranslational modification]; other site 399739009145 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 399739009146 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739009147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739009148 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 399739009149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739009150 NAD(P) binding site [chemical binding]; other site 399739009151 active site 399739009152 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 399739009153 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 399739009154 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 399739009155 MgtE intracellular N domain; Region: MgtE_N; smart00924 399739009156 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 399739009157 Divalent cation transporter; Region: MgtE; cl00786 399739009158 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739009159 carbon storage regulator; Provisional; Region: PRK01712 399739009160 aspartate kinase; Reviewed; Region: PRK06635 399739009161 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 399739009162 putative nucleotide binding site [chemical binding]; other site 399739009163 putative catalytic residues [active] 399739009164 putative Mg ion binding site [ion binding]; other site 399739009165 putative aspartate binding site [chemical binding]; other site 399739009166 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 399739009167 putative allosteric regulatory site; other site 399739009168 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 399739009169 putative allosteric regulatory residue; other site 399739009170 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 399739009171 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 399739009172 motif 1; other site 399739009173 active site 399739009174 motif 2; other site 399739009175 motif 3; other site 399739009176 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 399739009177 DHHA1 domain; Region: DHHA1; pfam02272 399739009178 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 399739009179 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 399739009180 tetramer interface [polypeptide binding]; other site 399739009181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739009182 catalytic residue [active] 399739009183 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 399739009184 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 399739009185 putative active site [active] 399739009186 Zn binding site [ion binding]; other site 399739009187 succinylarginine dihydrolase; Provisional; Region: PRK13281 399739009188 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 399739009189 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 399739009190 NAD(P) binding site [chemical binding]; other site 399739009191 catalytic residues [active] 399739009192 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 399739009193 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 399739009194 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 399739009195 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 399739009196 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 399739009197 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 399739009198 inhibitor-cofactor binding pocket; inhibition site 399739009199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739009200 catalytic residue [active] 399739009201 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739009202 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 399739009203 conserved cys residue [active] 399739009204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739009205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739009206 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 399739009207 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739009208 Walker A/P-loop; other site 399739009209 ATP binding site [chemical binding]; other site 399739009210 Q-loop/lid; other site 399739009211 ABC transporter signature motif; other site 399739009212 Walker B; other site 399739009213 D-loop; other site 399739009214 H-loop/switch region; other site 399739009215 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739009216 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 399739009217 dimer interface [polypeptide binding]; other site 399739009218 conserved gate region; other site 399739009219 putative PBP binding loops; other site 399739009220 ABC-ATPase subunit interface; other site 399739009221 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739009222 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 399739009223 dimer interface [polypeptide binding]; other site 399739009224 conserved gate region; other site 399739009225 putative PBP binding loops; other site 399739009226 ABC-ATPase subunit interface; other site 399739009227 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 399739009228 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 399739009229 substrate binding pocket [chemical binding]; other site 399739009230 membrane-bound complex binding site; other site 399739009231 hinge residues; other site 399739009232 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 399739009233 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 399739009234 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 399739009235 GspL periplasmic domain; Region: GspL_C; pfam12693 399739009236 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 399739009237 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 399739009238 type II secretion system protein I; Region: gspI; TIGR01707 399739009239 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 399739009240 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 399739009241 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 399739009242 type II secretion system protein F; Region: GspF; TIGR02120 399739009243 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739009244 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399739009245 type II secretion system protein E; Region: type_II_gspE; TIGR02533 399739009246 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 399739009247 Walker A motif; other site 399739009248 ATP binding site [chemical binding]; other site 399739009249 Walker B motif; other site 399739009250 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 399739009251 type II secretion system protein D; Region: type_II_gspD; TIGR02517 399739009252 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739009253 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739009254 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739009255 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399739009256 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 399739009257 MoxR-like ATPases [General function prediction only]; Region: COG0714 399739009258 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 399739009259 Walker A motif; other site 399739009260 ATP binding site [chemical binding]; other site 399739009261 Walker B motif; other site 399739009262 arginine finger; other site 399739009263 Protein of unknown function DUF58; Region: DUF58; pfam01882 399739009264 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 399739009265 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 399739009266 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 399739009267 metal ion-dependent adhesion site (MIDAS); other site 399739009268 von Willebrand factor type A domain; Region: VWA_2; pfam13519 399739009269 Oxygen tolerance; Region: BatD; pfam13584 399739009270 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 399739009271 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 399739009272 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 399739009273 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 399739009274 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739009275 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739009276 aminopeptidase N; Provisional; Region: pepN; PRK14015 399739009277 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 399739009278 active site 399739009279 Zn binding site [ion binding]; other site 399739009280 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 399739009281 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 399739009282 Rhomboid family; Region: Rhomboid; pfam01694 399739009283 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 399739009284 active site 399739009285 metal binding site [ion binding]; metal-binding site 399739009286 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 399739009287 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 399739009288 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 399739009289 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 399739009290 ligand binding site [chemical binding]; other site 399739009291 flexible hinge region; other site 399739009292 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399739009293 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 399739009294 ligand binding site [chemical binding]; other site 399739009295 flexible hinge region; other site 399739009296 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 399739009297 active site residue [active] 399739009298 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 399739009299 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 399739009300 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399739009301 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 399739009302 SnoaL-like domain; Region: SnoaL_2; pfam12680 399739009303 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399739009304 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 399739009305 active site 399739009306 FMN binding site [chemical binding]; other site 399739009307 2,4-decadienoyl-CoA binding site; other site 399739009308 catalytic residue [active] 399739009309 4Fe-4S cluster binding site [ion binding]; other site 399739009310 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 399739009311 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739009312 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 399739009313 active site 399739009314 catalytic triad [active] 399739009315 dimer interface [polypeptide binding]; other site 399739009316 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739009317 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739009318 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739009319 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 399739009320 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 399739009321 active site 399739009322 dimer interface [polypeptide binding]; other site 399739009323 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 399739009324 Ligand Binding Site [chemical binding]; other site 399739009325 Molecular Tunnel; other site 399739009326 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 399739009327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739009328 Coenzyme A binding pocket [chemical binding]; other site 399739009329 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739009330 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 399739009331 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 399739009332 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 399739009333 putative oligomer interface [polypeptide binding]; other site 399739009334 putative active site [active] 399739009335 metal binding site [ion binding]; metal-binding site 399739009336 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739009337 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399739009338 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739009339 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 399739009340 dimer interface [polypeptide binding]; other site 399739009341 phosphorylation site [posttranslational modification] 399739009342 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 399739009343 ATP binding site [chemical binding]; other site 399739009344 Mg2+ binding site [ion binding]; other site 399739009345 G-X-G motif; other site 399739009346 Response regulator receiver domain; Region: Response_reg; pfam00072 399739009347 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 399739009348 active site 399739009349 phosphorylation site [posttranslational modification] 399739009350 intermolecular recognition site; other site 399739009351 dimerization interface [polypeptide binding]; other site 399739009352 hypothetical protein; Provisional; Region: PRK00304 399739009353 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 399739009354 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 399739009355 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399739009356 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 399739009357 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 399739009358 Ligand Binding Site [chemical binding]; other site 399739009359 DNA-J related protein; Region: DNAJ_related; pfam12339 399739009360 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 399739009361 HSP70 interaction site [polypeptide binding]; other site 399739009362 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 399739009363 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 399739009364 hypothetical protein; Provisional; Region: PRK04860 399739009365 SprT homologues; Region: SprT; cl01182 399739009366 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 399739009367 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 399739009368 CoA-transferase family III; Region: CoA_transf_3; pfam02515 399739009369 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 399739009370 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 399739009371 acyl-activating enzyme (AAE) consensus motif; other site 399739009372 putative AMP binding site [chemical binding]; other site 399739009373 putative active site [active] 399739009374 putative CoA binding site [chemical binding]; other site 399739009375 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739009376 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739009377 active site 399739009378 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739009379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739009380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739009381 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 399739009382 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 399739009383 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 399739009384 PAS domain; Region: PAS_9; pfam13426 399739009385 putative active site [active] 399739009386 heme pocket [chemical binding]; other site 399739009387 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 399739009388 PAS domain; Region: PAS_9; pfam13426 399739009389 putative active site [active] 399739009390 heme pocket [chemical binding]; other site 399739009391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739009392 dimer interface [polypeptide binding]; other site 399739009393 putative CheW interface [polypeptide binding]; other site 399739009394 sensor protein PhoQ; Provisional; Region: PRK10815 399739009395 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 399739009396 dimer interface [polypeptide binding]; other site 399739009397 phosphorylation site [posttranslational modification] 399739009398 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 399739009399 ATP binding site [chemical binding]; other site 399739009400 Mg2+ binding site [ion binding]; other site 399739009401 G-X-G motif; other site 399739009402 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 399739009403 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 399739009404 active site 399739009405 phosphorylation site [posttranslational modification] 399739009406 intermolecular recognition site; other site 399739009407 dimerization interface [polypeptide binding]; other site 399739009408 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 399739009409 DNA binding site [nucleotide binding] 399739009410 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399739009411 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 399739009412 NapD protein; Region: NapD; pfam03927 399739009413 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 399739009414 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 399739009415 [4Fe-4S] binding site [ion binding]; other site 399739009416 molybdopterin cofactor binding site; other site 399739009417 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 399739009418 molybdopterin cofactor binding site; other site 399739009419 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 399739009420 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 399739009421 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 399739009422 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 399739009423 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399739009424 catalytic residues [active] 399739009425 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 399739009426 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 399739009427 ArsC family; Region: ArsC; pfam03960 399739009428 catalytic residues [active] 399739009429 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 399739009430 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739009431 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 399739009432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739009433 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399739009434 catalytic site [active] 399739009435 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 399739009436 DNA replication initiation factor; Validated; Region: PRK05642 399739009437 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 399739009438 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399739009439 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 399739009440 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 399739009441 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 399739009442 dimerization interface [polypeptide binding]; other site 399739009443 putative ATP binding site [chemical binding]; other site 399739009444 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 399739009445 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 399739009446 active site 399739009447 substrate binding site [chemical binding]; other site 399739009448 cosubstrate binding site; other site 399739009449 catalytic site [active] 399739009450 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 399739009451 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 399739009452 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 399739009453 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 399739009454 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 399739009455 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 399739009456 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739009457 Zn2+ binding site [ion binding]; other site 399739009458 Mg2+ binding site [ion binding]; other site 399739009459 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 399739009460 HAMP domain; Region: HAMP; pfam00672 399739009461 dimerization interface [polypeptide binding]; other site 399739009462 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399739009463 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739009464 hypothetical protein; Provisional; Region: PRK11702 399739009465 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 399739009466 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 399739009467 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 399739009468 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 399739009469 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 399739009470 S-adenosylmethionine binding site [chemical binding]; other site 399739009471 Ribosome modulation factor; Region: RMF; pfam04957 399739009472 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 399739009473 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 399739009474 quinone interaction residues [chemical binding]; other site 399739009475 active site 399739009476 catalytic residues [active] 399739009477 FMN binding site [chemical binding]; other site 399739009478 substrate binding site [chemical binding]; other site 399739009479 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 399739009480 recombination regulator RecX; Reviewed; Region: recX; PRK00117 399739009481 recombinase A; Provisional; Region: recA; PRK09354 399739009482 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 399739009483 hexamer interface [polypeptide binding]; other site 399739009484 Walker A motif; other site 399739009485 ATP binding site [chemical binding]; other site 399739009486 Walker B motif; other site 399739009487 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 399739009488 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739009489 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739009490 Ferredoxin [Energy production and conversion]; Region: COG1146 399739009491 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 399739009492 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 399739009493 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 399739009494 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739009495 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399739009496 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 399739009497 DNA binding residues [nucleotide binding] 399739009498 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739009499 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739009500 Domain of unknown function (DUF368); Region: DUF368; pfam04018 399739009501 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 399739009502 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 399739009503 S-adenosylmethionine binding site [chemical binding]; other site 399739009504 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 399739009505 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 399739009506 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 399739009507 Permutation of conserved domain; other site 399739009508 active site 399739009509 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 399739009510 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 399739009511 homotrimer interaction site [polypeptide binding]; other site 399739009512 zinc binding site [ion binding]; other site 399739009513 CDP-binding sites; other site 399739009514 S-formylglutathione hydrolase; Region: PLN02442 399739009515 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 399739009516 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 399739009517 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 399739009518 substrate binding site [chemical binding]; other site 399739009519 catalytic Zn binding site [ion binding]; other site 399739009520 NAD binding site [chemical binding]; other site 399739009521 structural Zn binding site [ion binding]; other site 399739009522 dimer interface [polypeptide binding]; other site 399739009523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739009524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739009525 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 399739009526 putative effector binding pocket; other site 399739009527 putative dimerization interface [polypeptide binding]; other site 399739009528 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 399739009529 30S subunit binding site; other site 399739009530 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 399739009531 substrate binding site; other site 399739009532 dimer interface; other site 399739009533 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 399739009534 Septum formation initiator; Region: DivIC; cl17659 399739009535 enolase; Provisional; Region: eno; PRK00077 399739009536 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 399739009537 dimer interface [polypeptide binding]; other site 399739009538 metal binding site [ion binding]; metal-binding site 399739009539 substrate binding pocket [chemical binding]; other site 399739009540 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399739009541 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 399739009542 CTP synthetase; Validated; Region: pyrG; PRK05380 399739009543 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 399739009544 Catalytic site [active] 399739009545 active site 399739009546 UTP binding site [chemical binding]; other site 399739009547 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 399739009548 active site 399739009549 putative oxyanion hole; other site 399739009550 catalytic triad [active] 399739009551 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 399739009552 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 399739009553 Ligand Binding Site [chemical binding]; other site 399739009554 TilS substrate binding domain; Region: TilS; pfam09179 399739009555 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 399739009556 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 399739009557 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 399739009558 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 399739009559 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 399739009560 putative active site [active] 399739009561 putative PHP Thumb interface [polypeptide binding]; other site 399739009562 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 399739009563 generic binding surface II; other site 399739009564 generic binding surface I; other site 399739009565 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 399739009566 RNA/DNA hybrid binding site [nucleotide binding]; other site 399739009567 active site 399739009568 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 399739009569 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 399739009570 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 399739009571 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 399739009572 active site 399739009573 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 399739009574 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 399739009575 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 399739009576 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 399739009577 trimer interface [polypeptide binding]; other site 399739009578 active site 399739009579 UDP-GlcNAc binding site [chemical binding]; other site 399739009580 lipid binding site [chemical binding]; lipid-binding site 399739009581 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 399739009582 periplasmic chaperone; Provisional; Region: PRK10780 399739009583 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 399739009584 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739009585 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739009586 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739009587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399739009588 Surface antigen; Region: Bac_surface_Ag; pfam01103 399739009589 zinc metallopeptidase RseP; Provisional; Region: PRK10779 399739009590 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 399739009591 active site 399739009592 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 399739009593 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 399739009594 protein binding site [polypeptide binding]; other site 399739009595 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 399739009596 putative substrate binding region [chemical binding]; other site 399739009597 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 399739009598 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 399739009599 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 399739009600 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 399739009601 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 399739009602 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 399739009603 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 399739009604 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 399739009605 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 399739009606 catalytic residue [active] 399739009607 putative FPP diphosphate binding site; other site 399739009608 putative FPP binding hydrophobic cleft; other site 399739009609 dimer interface [polypeptide binding]; other site 399739009610 putative IPP diphosphate binding site; other site 399739009611 ribosome recycling factor; Reviewed; Region: frr; PRK00083 399739009612 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 399739009613 hinge region; other site 399739009614 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 399739009615 putative nucleotide binding site [chemical binding]; other site 399739009616 uridine monophosphate binding site [chemical binding]; other site 399739009617 homohexameric interface [polypeptide binding]; other site 399739009618 elongation factor Ts; Provisional; Region: tsf; PRK09377 399739009619 UBA/TS-N domain; Region: UBA; pfam00627 399739009620 Elongation factor TS; Region: EF_TS; pfam00889 399739009621 Elongation factor TS; Region: EF_TS; pfam00889 399739009622 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 399739009623 rRNA interaction site [nucleotide binding]; other site 399739009624 S8 interaction site; other site 399739009625 putative laminin-1 binding site; other site 399739009626 methionine aminopeptidase; Provisional; Region: PRK08671 399739009627 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 399739009628 active site 399739009629 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 399739009630 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399739009631 metal binding triad; other site 399739009632 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399739009633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739009634 Zn2+ binding site [ion binding]; other site 399739009635 Mg2+ binding site [ion binding]; other site 399739009636 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 399739009637 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 399739009638 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 399739009639 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 399739009640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739009641 homodimer interface [polypeptide binding]; other site 399739009642 catalytic residue [active] 399739009643 Alginate lyase; Region: Alginate_lyase2; pfam08787 399739009644 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 399739009645 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 399739009646 ArsC family; Region: ArsC; pfam03960 399739009647 putative catalytic residues [active] 399739009648 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 399739009649 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 399739009650 putative trimer interface [polypeptide binding]; other site 399739009651 putative CoA binding site [chemical binding]; other site 399739009652 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 399739009653 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 399739009654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739009655 catalytic residue [active] 399739009656 Fe-S metabolism associated domain; Region: SufE; cl00951 399739009657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 399739009658 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 399739009659 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 399739009660 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 399739009661 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739009662 substrate binding pocket [chemical binding]; other site 399739009663 membrane-bound complex binding site; other site 399739009664 hinge residues; other site 399739009665 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 399739009666 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 399739009667 putative ATP binding site [chemical binding]; other site 399739009668 putative substrate interface [chemical binding]; other site 399739009669 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 399739009670 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 399739009671 active site 399739009672 NAD binding site [chemical binding]; other site 399739009673 metal binding site [ion binding]; metal-binding site 399739009674 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 399739009675 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 399739009676 metal binding site [ion binding]; metal-binding site 399739009677 dimer interface [polypeptide binding]; other site 399739009678 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 399739009679 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 399739009680 S-adenosylmethionine binding site [chemical binding]; other site 399739009681 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 399739009682 DNA-binding site [nucleotide binding]; DNA binding site 399739009683 RNA-binding motif; other site 399739009684 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 399739009685 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 399739009686 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 399739009687 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 399739009688 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 399739009689 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399739009690 Walker A/P-loop; other site 399739009691 ATP binding site [chemical binding]; other site 399739009692 Q-loop/lid; other site 399739009693 ABC transporter signature motif; other site 399739009694 Walker B; other site 399739009695 D-loop; other site 399739009696 H-loop/switch region; other site 399739009697 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 399739009698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739009699 Coenzyme A binding pocket [chemical binding]; other site 399739009700 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739009701 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739009702 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739009703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739009704 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739009705 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739009706 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739009707 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739009708 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739009709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739009710 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399739009711 Coenzyme A binding pocket [chemical binding]; other site 399739009712 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 399739009713 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 399739009714 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 399739009715 putative acyl-acceptor binding pocket; other site 399739009716 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399739009717 malate:quinone oxidoreductase; Validated; Region: PRK05257 399739009718 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 399739009719 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 399739009720 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 399739009721 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 399739009722 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 399739009723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739009724 DNA-binding site [nucleotide binding]; DNA binding site 399739009725 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 399739009726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739009727 homodimer interface [polypeptide binding]; other site 399739009728 catalytic residue [active] 399739009729 hypothetical protein; Provisional; Region: PRK09126 399739009730 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 399739009731 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 399739009732 Bacterial SH3 domain; Region: SH3_3; pfam08239 399739009733 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 399739009734 transcriptional regulator; Provisional; Region: PRK10632 399739009735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739009736 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 399739009737 putative effector binding pocket; other site 399739009738 dimerization interface [polypeptide binding]; other site 399739009739 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 399739009740 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739009741 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739009742 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739009743 active site 399739009744 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739009745 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 399739009746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739009747 C factor cell-cell signaling protein; Provisional; Region: PRK09009 399739009748 NAD(P) binding site [chemical binding]; other site 399739009749 active site 399739009750 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 399739009751 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 399739009752 acetyl-CoA synthetase; Provisional; Region: PRK00174 399739009753 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 399739009754 active site 399739009755 CoA binding site [chemical binding]; other site 399739009756 acyl-activating enzyme (AAE) consensus motif; other site 399739009757 AMP binding site [chemical binding]; other site 399739009758 acetate binding site [chemical binding]; other site 399739009759 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 399739009760 nucleoside/Zn binding site; other site 399739009761 dimer interface [polypeptide binding]; other site 399739009762 catalytic motif [active] 399739009763 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 399739009764 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399739009765 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 399739009766 putative active site [active] 399739009767 heme pocket [chemical binding]; other site 399739009768 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 399739009769 Walker A motif; other site 399739009770 ATP binding site [chemical binding]; other site 399739009771 Walker B motif; other site 399739009772 arginine finger; other site 399739009773 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 399739009774 cofactor binding site; other site 399739009775 metal binding site [ion binding]; metal-binding site 399739009776 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 399739009777 aromatic arch; other site 399739009778 DCoH dimer interaction site [polypeptide binding]; other site 399739009779 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 399739009780 DCoH tetramer interaction site [polypeptide binding]; other site 399739009781 substrate binding site [chemical binding]; other site 399739009782 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 399739009783 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 399739009784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739009785 homodimer interface [polypeptide binding]; other site 399739009786 catalytic residue [active] 399739009787 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 399739009788 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 399739009789 dimer interface [polypeptide binding]; other site 399739009790 conserved gate region; other site 399739009791 ABC-ATPase subunit interface; other site 399739009792 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 399739009793 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 399739009794 Walker A/P-loop; other site 399739009795 ATP binding site [chemical binding]; other site 399739009796 Q-loop/lid; other site 399739009797 ABC transporter signature motif; other site 399739009798 Walker B; other site 399739009799 D-loop; other site 399739009800 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 399739009801 H-loop/switch region; other site 399739009802 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 399739009803 putative PBP binding loops; other site 399739009804 ABC-ATPase subunit interface; other site 399739009805 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 399739009806 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 399739009807 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 399739009808 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 399739009809 active site 399739009810 motif I; other site 399739009811 motif II; other site 399739009812 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399739009813 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 399739009814 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 399739009815 active site 399739009816 homotetramer interface [polypeptide binding]; other site 399739009817 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739009818 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 399739009819 dimer interface [polypeptide binding]; other site 399739009820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 399739009821 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739009822 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 399739009823 nucleophilic elbow; other site 399739009824 catalytic triad; other site 399739009825 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739009826 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739009827 TAP-like protein; Region: Abhydrolase_4; pfam08386 399739009828 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 399739009829 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 399739009830 Walker A/P-loop; other site 399739009831 ATP binding site [chemical binding]; other site 399739009832 Q-loop/lid; other site 399739009833 ABC transporter signature motif; other site 399739009834 Walker B; other site 399739009835 D-loop; other site 399739009836 H-loop/switch region; other site 399739009837 TOBE domain; Region: TOBE_2; pfam08402 399739009838 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 399739009839 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 399739009840 active site 399739009841 catalytic site [active] 399739009842 transcriptional regulator MalT; Provisional; Region: PRK04841 399739009843 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 399739009844 DNA binding residues [nucleotide binding] 399739009845 dimerization interface [polypeptide binding]; other site 399739009846 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 399739009847 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 399739009848 dimer interface [polypeptide binding]; other site 399739009849 conserved gate region; other site 399739009850 putative PBP binding loops; other site 399739009851 ABC-ATPase subunit interface; other site 399739009852 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 399739009853 dimer interface [polypeptide binding]; other site 399739009854 conserved gate region; other site 399739009855 putative PBP binding loops; other site 399739009856 ABC-ATPase subunit interface; other site 399739009857 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 399739009858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739009859 alpha-amylase; Reviewed; Region: malS; PRK09505 399739009860 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 399739009861 active site 399739009862 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 399739009863 active site 399739009864 catalytic site [active] 399739009865 catalytic site [active] 399739009866 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 399739009867 active site 399739009868 substrate binding site [chemical binding]; other site 399739009869 ATP binding site [chemical binding]; other site 399739009870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 399739009871 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 399739009872 active site 399739009873 Ca binding site [ion binding]; other site 399739009874 catalytic site [active] 399739009875 Domain of unknown function (DUF1921); Region: DUF1921; pfam09081 399739009876 Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from...; Region: CBM20_alpha_MTH; cd05810 399739009877 starch-binding site 2 [chemical binding]; other site 399739009878 starch-binding site 1 [chemical binding]; other site 399739009879 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 399739009880 trimer interface; other site 399739009881 sugar binding site [chemical binding]; other site 399739009882 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 399739009883 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739009884 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 399739009885 dimerization interface [polypeptide binding]; other site 399739009886 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739009887 dimer interface [polypeptide binding]; other site 399739009888 putative CheW interface [polypeptide binding]; other site 399739009889 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739009890 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 399739009891 active site 399739009892 catalytic tetrad [active] 399739009893 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 399739009894 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 399739009895 active site 399739009896 intersubunit interface [polypeptide binding]; other site 399739009897 catalytic residue [active] 399739009898 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 399739009899 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 399739009900 putative active site [active] 399739009901 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 399739009902 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 399739009903 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 399739009904 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 399739009905 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 399739009906 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 399739009907 putative active site [active] 399739009908 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 399739009909 Sodium Bile acid symporter family; Region: SBF; pfam01758 399739009910 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 399739009911 H+ Antiporter protein; Region: 2A0121; TIGR00900 399739009912 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739009913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399739009914 putative acyl-acceptor binding pocket; other site 399739009915 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 399739009916 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 399739009917 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 399739009918 dimerization interface [polypeptide binding]; other site 399739009919 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 399739009920 dimer interface [polypeptide binding]; other site 399739009921 phosphorylation site [posttranslational modification] 399739009922 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 399739009923 ATP binding site [chemical binding]; other site 399739009924 Mg2+ binding site [ion binding]; other site 399739009925 G-X-G motif; other site 399739009926 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 399739009927 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 399739009928 active site 399739009929 phosphorylation site [posttranslational modification] 399739009930 intermolecular recognition site; other site 399739009931 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 399739009932 DNA binding site [nucleotide binding] 399739009933 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 399739009934 ATP cone domain; Region: ATP-cone; pfam03477 399739009935 ATP cone domain; Region: ATP-cone; pfam03477 399739009936 Class I ribonucleotide reductase; Region: RNR_I; cd01679 399739009937 active site 399739009938 dimer interface [polypeptide binding]; other site 399739009939 catalytic residues [active] 399739009940 effector binding site; other site 399739009941 R2 peptide binding site; other site 399739009942 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 399739009943 dimer interface [polypeptide binding]; other site 399739009944 putative radical transfer pathway; other site 399739009945 diiron center [ion binding]; other site 399739009946 tyrosyl radical; other site 399739009947 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 399739009948 ATP binding site [chemical binding]; other site 399739009949 Mg2+ binding site [ion binding]; other site 399739009950 G-X-G motif; other site 399739009951 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 399739009952 Transposase IS200 like; Region: Y1_Tnp; cl00848 399739009953 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 399739009954 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399739009955 active site 399739009956 catalytic tetrad [active] 399739009957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739009958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739009959 LysR substrate binding domain; Region: LysR_substrate; pfam03466 399739009960 dimerization interface [polypeptide binding]; other site 399739009961 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 399739009962 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399739009963 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739009964 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 399739009965 dimerization interface [polypeptide binding]; other site 399739009966 substrate binding pocket [chemical binding]; other site 399739009967 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 399739009968 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739009969 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 399739009970 S-adenosylmethionine binding site [chemical binding]; other site 399739009971 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 399739009972 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 399739009973 secondary substrate binding site; other site 399739009974 primary substrate binding site; other site 399739009975 inhibition loop; other site 399739009976 dimerization interface [polypeptide binding]; other site 399739009977 hypothetical protein; Provisional; Region: PRK10396 399739009978 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 399739009979 SEC-C motif; Region: SEC-C; pfam02810 399739009980 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 399739009981 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 399739009982 Peptidase family U32; Region: Peptidase_U32; pfam01136 399739009983 Collagenase; Region: DUF3656; pfam12392 399739009984 Uncharacterized conserved protein [Function unknown]; Region: COG1359 399739009985 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 399739009986 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 399739009987 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 399739009988 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 399739009989 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 399739009990 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 399739009991 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 399739009992 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739009993 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739009994 metal binding site [ion binding]; metal-binding site 399739009995 active site 399739009996 I-site; other site 399739009997 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 399739009998 EamA-like transporter family; Region: EamA; pfam00892 399739009999 EamA-like transporter family; Region: EamA; pfam00892 399739010000 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399739010001 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 399739010002 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 399739010003 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 399739010004 hypothetical protein; Provisional; Region: PRK12378 399739010005 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 399739010006 nudix motif; other site 399739010007 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 399739010008 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 399739010009 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 399739010010 phosphopeptide binding site; other site 399739010011 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 399739010012 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 399739010013 phosphopeptide binding site; other site 399739010014 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 399739010015 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 399739010016 active site 399739010017 ATP binding site [chemical binding]; other site 399739010018 substrate binding site [chemical binding]; other site 399739010019 activation loop (A-loop); other site 399739010020 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 399739010021 active site 399739010022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 399739010023 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739010024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739010025 metal binding site [ion binding]; metal-binding site 399739010026 active site 399739010027 I-site; other site 399739010028 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 399739010029 S1 domain; Region: S1_2; pfam13509 399739010030 S1 domain; Region: S1_2; pfam13509 399739010031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 399739010032 DNA-binding site [nucleotide binding]; DNA binding site 399739010033 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 399739010034 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 399739010035 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739010036 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 399739010037 substrate binding pocket [chemical binding]; other site 399739010038 hinge residues; other site 399739010039 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 399739010040 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 399739010041 NADP binding site [chemical binding]; other site 399739010042 dimer interface [polypeptide binding]; other site 399739010043 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 399739010044 putative substrate translocation pore; other site 399739010045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739010046 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 399739010047 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 399739010048 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 399739010049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739010050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739010051 metal binding site [ion binding]; metal-binding site 399739010052 active site 399739010053 I-site; other site 399739010054 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 399739010055 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 399739010056 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 399739010057 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399739010058 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 399739010059 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 399739010060 substrate binding pocket [chemical binding]; other site 399739010061 membrane-bound complex binding site; other site 399739010062 hinge residues; other site 399739010063 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 399739010064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739010065 Walker A/P-loop; other site 399739010066 ATP binding site [chemical binding]; other site 399739010067 Q-loop/lid; other site 399739010068 ABC transporter signature motif; other site 399739010069 Walker B; other site 399739010070 D-loop; other site 399739010071 H-loop/switch region; other site 399739010072 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 399739010073 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 399739010074 dimer interface [polypeptide binding]; other site 399739010075 conserved gate region; other site 399739010076 putative PBP binding loops; other site 399739010077 ABC-ATPase subunit interface; other site 399739010078 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 399739010079 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739010080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399739010082 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 399739010083 NAD(P) binding site [chemical binding]; other site 399739010084 catalytic residues [active] 399739010085 Activator of aromatic catabolism; Region: XylR_N; pfam06505 399739010086 V4R domain; Region: V4R; pfam02830 399739010087 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399739010088 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 399739010089 Walker A motif; other site 399739010090 ATP binding site [chemical binding]; other site 399739010091 Walker B motif; other site 399739010092 arginine finger; other site 399739010093 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739010094 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 399739010095 classical (c) SDRs; Region: SDR_c; cd05233 399739010096 NAD(P) binding site [chemical binding]; other site 399739010097 active site 399739010098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739010099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739010100 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 399739010101 putative effector binding pocket; other site 399739010102 dimerization interface [polypeptide binding]; other site 399739010103 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 399739010104 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739010105 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 399739010106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739010107 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_3; cd08461 399739010108 putative substrate binding pocket [chemical binding]; other site 399739010109 putative dimerization interface [polypeptide binding]; other site 399739010110 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 399739010111 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 399739010112 Helix-turn-helix domain; Region: HTH_31; pfam13560 399739010113 salt bridge; other site 399739010114 non-specific DNA binding site [nucleotide binding]; other site 399739010115 sequence-specific DNA binding site [nucleotide binding]; other site 399739010116 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 399739010117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739010118 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 399739010119 dimerization interface [polypeptide binding]; other site 399739010120 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 399739010121 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739010122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739010124 short chain dehydrogenase; Provisional; Region: PRK12939 399739010125 NAD(P) binding site [chemical binding]; other site 399739010126 active site 399739010127 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 399739010128 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 399739010129 putative DNA binding site [nucleotide binding]; other site 399739010130 putative homodimer interface [polypeptide binding]; other site 399739010131 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 399739010132 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 399739010133 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 399739010134 active site 399739010135 DNA binding site [nucleotide binding] 399739010136 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 399739010137 DNA binding site [nucleotide binding] 399739010138 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 399739010139 nucleotide binding site [chemical binding]; other site 399739010140 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399739010141 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399739010142 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 399739010143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739010144 dimer interface [polypeptide binding]; other site 399739010145 putative CheW interface [polypeptide binding]; other site 399739010146 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 399739010147 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739010148 DNA binding residues [nucleotide binding] 399739010149 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399739010150 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 399739010151 putative active site [active] 399739010152 putative FMN binding site [chemical binding]; other site 399739010153 putative substrate binding site [chemical binding]; other site 399739010154 putative catalytic residue [active] 399739010155 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 399739010156 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 399739010157 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399739010158 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 399739010159 FAD binding pocket [chemical binding]; other site 399739010160 FAD binding motif [chemical binding]; other site 399739010161 phosphate binding motif [ion binding]; other site 399739010162 beta-alpha-beta structure motif; other site 399739010163 NAD binding pocket [chemical binding]; other site 399739010164 Heme binding pocket [chemical binding]; other site 399739010165 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399739010166 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 399739010167 catalytic loop [active] 399739010168 iron binding site [ion binding]; other site 399739010169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739010170 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 399739010171 putative C-terminal domain interface [polypeptide binding]; other site 399739010172 putative GSH binding site (G-site) [chemical binding]; other site 399739010173 putative dimer interface [polypeptide binding]; other site 399739010174 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 399739010175 putative N-terminal domain interface [polypeptide binding]; other site 399739010176 putative dimer interface [polypeptide binding]; other site 399739010177 putative substrate binding pocket (H-site) [chemical binding]; other site 399739010178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739010179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739010180 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 399739010181 putative effector binding pocket; other site 399739010182 putative dimerization interface [polypeptide binding]; other site 399739010183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739010184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739010185 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 399739010186 putative effector binding pocket; other site 399739010187 putative dimerization interface [polypeptide binding]; other site 399739010188 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399739010189 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 399739010190 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 399739010191 dimer interface [polypeptide binding]; other site 399739010192 active site 399739010193 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 399739010194 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 399739010195 Uncharacterized conserved protein [Function unknown]; Region: COG2326 399739010196 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 399739010197 Uncharacterized conserved protein [Function unknown]; Region: COG4121 399739010198 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739010199 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 399739010200 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 399739010201 N-terminal plug; other site 399739010202 ligand-binding site [chemical binding]; other site 399739010203 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 399739010204 EamA-like transporter family; Region: EamA; pfam00892 399739010205 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 399739010206 Family description; Region: UvrD_C_2; pfam13538 399739010207 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 399739010208 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399739010209 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 399739010210 Ligand binding site; other site 399739010211 DXD motif; other site 399739010212 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 399739010213 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 399739010214 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 399739010215 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 399739010216 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 399739010217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010218 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739010219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010220 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 399739010221 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 399739010222 ATP binding site [chemical binding]; other site 399739010223 putative Mg++ binding site [ion binding]; other site 399739010224 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 399739010225 nucleotide binding region [chemical binding]; other site 399739010226 ATP-binding site [chemical binding]; other site 399739010227 Predicted membrane protein [Function unknown]; Region: COG3223 399739010228 YebG protein; Region: YebG; pfam07130 399739010229 Uncharacterized conserved protein [Function unknown]; Region: COG3189 399739010230 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 399739010231 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 399739010232 E3 interaction surface; other site 399739010233 lipoyl attachment site [posttranslational modification]; other site 399739010234 e3 binding domain; Region: E3_binding; pfam02817 399739010235 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399739010236 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 399739010237 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 399739010238 alpha subunit interface [polypeptide binding]; other site 399739010239 TPP binding site [chemical binding]; other site 399739010240 heterodimer interface [polypeptide binding]; other site 399739010241 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399739010242 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 399739010243 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 399739010244 TPP-binding site [chemical binding]; other site 399739010245 tetramer interface [polypeptide binding]; other site 399739010246 heterodimer interface [polypeptide binding]; other site 399739010247 phosphorylation loop region [posttranslational modification] 399739010248 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 399739010249 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 399739010250 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 399739010251 NAD binding site [chemical binding]; other site 399739010252 Phe binding site; other site 399739010253 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 399739010254 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 399739010255 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 399739010256 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399739010257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739010258 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739010259 putrescine transporter; Provisional; Region: potE; PRK10655 399739010260 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739010261 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 399739010262 substrate binding pocket [chemical binding]; other site 399739010263 membrane-bound complex binding site; other site 399739010264 hinge residues; other site 399739010265 PilZ domain; Region: PilZ; pfam07238 399739010266 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739010267 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 399739010268 universal stress protein UspE; Provisional; Region: PRK11175 399739010269 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 399739010270 Ligand Binding Site [chemical binding]; other site 399739010271 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 399739010272 Ligand Binding Site [chemical binding]; other site 399739010273 pyruvate kinase; Provisional; Region: PRK05826 399739010274 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 399739010275 domain interfaces; other site 399739010276 active site 399739010277 enoyl-CoA hydratase; Provisional; Region: PRK06688 399739010278 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 399739010279 substrate binding site [chemical binding]; other site 399739010280 oxyanion hole (OAH) forming residues; other site 399739010281 trimer interface [polypeptide binding]; other site 399739010282 hypothetical protein; Provisional; Region: PRK05713 399739010283 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 399739010284 catalytic loop [active] 399739010285 iron binding site [ion binding]; other site 399739010286 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 399739010287 FAD binding pocket [chemical binding]; other site 399739010288 FAD binding motif [chemical binding]; other site 399739010289 phosphate binding motif [ion binding]; other site 399739010290 beta-alpha-beta structure motif; other site 399739010291 NAD binding pocket [chemical binding]; other site 399739010292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739010293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739010294 metal binding site [ion binding]; metal-binding site 399739010295 active site 399739010296 I-site; other site 399739010297 putative fumarate hydratase; Provisional; Region: PRK15392 399739010298 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 399739010299 Fumarase C-terminus; Region: Fumerase_C; pfam05683 399739010300 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 399739010301 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 399739010302 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739010303 catalytic residue [active] 399739010304 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 399739010305 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 399739010306 Predicted ATPase [General function prediction only]; Region: COG1485 399739010307 Predicted amidohydrolase [General function prediction only]; Region: COG0388 399739010308 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 399739010309 putative active site [active] 399739010310 catalytic triad [active] 399739010311 putative dimer interface [polypeptide binding]; other site 399739010312 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 399739010313 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 399739010314 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 399739010315 intracellular protease, PfpI family; Region: PfpI; TIGR01382 399739010316 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 399739010317 conserved cys residue [active] 399739010318 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 399739010319 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 399739010320 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 399739010321 substrate binding site [chemical binding]; other site 399739010322 oxyanion hole (OAH) forming residues; other site 399739010323 trimer interface [polypeptide binding]; other site 399739010324 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 399739010325 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 399739010326 NAD binding site [chemical binding]; other site 399739010327 homodimer interface [polypeptide binding]; other site 399739010328 active site 399739010329 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 399739010330 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739010331 aldolase II superfamily protein; Provisional; Region: PRK07044 399739010332 intersubunit interface [polypeptide binding]; other site 399739010333 active site 399739010334 Zn2+ binding site [ion binding]; other site 399739010335 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 399739010336 flavodoxin; Provisional; Region: PRK05723 399739010337 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 399739010338 PAS domain; Region: PAS_9; pfam13426 399739010339 putative active site [active] 399739010340 heme pocket [chemical binding]; other site 399739010341 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739010342 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 399739010343 DNA binding residues [nucleotide binding] 399739010344 B12 binding domain; Region: B12-binding_2; cl03653 399739010345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 399739010346 dihydromonapterin reductase; Provisional; Region: PRK06483 399739010347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739010348 NAD(P) binding site [chemical binding]; other site 399739010349 active site 399739010350 GTP cyclohydrolase I; Provisional; Region: PLN03044 399739010351 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 399739010352 homodecamer interface [polypeptide binding]; other site 399739010353 active site 399739010354 putative catalytic site residues [active] 399739010355 zinc binding site [ion binding]; other site 399739010356 GTP-CH-I/GFRP interaction surface; other site 399739010357 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 399739010358 homooctamer interface [polypeptide binding]; other site 399739010359 active site 399739010360 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 399739010361 HopJ type III effector protein; Region: HopJ; pfam08888 399739010362 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 399739010363 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 399739010364 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 399739010365 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 399739010366 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 399739010367 Imelysin; Region: Peptidase_M75; cl09159 399739010368 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 399739010369 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739010370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739010371 active site 399739010372 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 399739010373 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739010374 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739010375 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 399739010376 DctM-like transporters; Region: DctM; pfam06808 399739010377 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 399739010378 Transcriptional regulators [Transcription]; Region: FadR; COG2186 399739010379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739010380 DNA-binding site [nucleotide binding]; DNA binding site 399739010381 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399739010382 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 399739010383 active site 399739010384 catalytic residues [active] 399739010385 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 399739010386 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 399739010387 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 399739010388 Cache domain; Region: Cache_1; pfam02743 399739010389 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 399739010390 dimerization interface [polypeptide binding]; other site 399739010391 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739010392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739010393 dimer interface [polypeptide binding]; other site 399739010394 putative CheW interface [polypeptide binding]; other site 399739010395 FOG: CBS domain [General function prediction only]; Region: COG0517 399739010396 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 399739010397 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 399739010398 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 399739010399 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 399739010400 putative active site [active] 399739010401 putative substrate binding site [chemical binding]; other site 399739010402 putative cosubstrate binding site; other site 399739010403 catalytic site [active] 399739010404 exonuclease I; Provisional; Region: sbcB; PRK11779 399739010405 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 399739010406 active site 399739010407 catalytic site [active] 399739010408 substrate binding site [chemical binding]; other site 399739010409 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 399739010410 Protein of unknown function (DUF975); Region: DUF975; cl10504 399739010411 Predicted membrane protein/domain [Function unknown]; Region: COG1714 399739010412 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 399739010413 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 399739010414 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 399739010415 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 399739010416 Walker A motif; other site 399739010417 ATP binding site [chemical binding]; other site 399739010418 Walker B motif; other site 399739010419 arginine finger; other site 399739010420 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 399739010421 Protein of unknown function DUF58; Region: DUF58; pfam01882 399739010422 superoxide dismutase; Provisional; Region: PRK10543 399739010423 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 399739010424 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 399739010425 biofilm formation regulator HmsP; Provisional; Region: PRK11829 399739010426 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739010427 metal binding site [ion binding]; metal-binding site 399739010428 active site 399739010429 I-site; other site 399739010430 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 399739010431 E3 Ubiquitin ligase; Region: GIDE; pfam12483 399739010432 LemA family; Region: LemA; pfam04011 399739010433 Imelysin; Region: Peptidase_M75; cl09159 399739010434 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739010435 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739010436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739010438 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 399739010439 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739010440 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 399739010441 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739010442 DNA binding residues [nucleotide binding] 399739010443 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739010444 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739010445 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399739010446 RmuC family; Region: RmuC; pfam02646 399739010447 RES domain; Region: RES; smart00953 399739010448 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 399739010449 non-specific DNA binding site [nucleotide binding]; other site 399739010450 salt bridge; other site 399739010451 sequence-specific DNA binding site [nucleotide binding]; other site 399739010452 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 399739010453 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 399739010454 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 399739010455 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 399739010456 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 399739010457 putative GSH binding site [chemical binding]; other site 399739010458 catalytic residues [active] 399739010459 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 399739010460 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 399739010461 putative [Fe4-S4] binding site [ion binding]; other site 399739010462 putative molybdopterin cofactor binding site [chemical binding]; other site 399739010463 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 399739010464 putative molybdopterin cofactor binding site; other site 399739010465 ornithine carbamoyltransferase; Provisional; Region: PRK00779 399739010466 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 399739010467 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 399739010468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399739010469 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 399739010470 Walker A/P-loop; other site 399739010471 ATP binding site [chemical binding]; other site 399739010472 Q-loop/lid; other site 399739010473 ABC transporter signature motif; other site 399739010474 Walker B; other site 399739010475 D-loop; other site 399739010476 H-loop/switch region; other site 399739010477 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 399739010478 TOBE domain; Region: TOBE_2; pfam08402 399739010479 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 399739010480 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 399739010481 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 399739010482 N- and C-terminal domain interface [polypeptide binding]; other site 399739010483 active site 399739010484 MgATP binding site [chemical binding]; other site 399739010485 catalytic site [active] 399739010486 metal binding site [ion binding]; metal-binding site 399739010487 glycerol binding site [chemical binding]; other site 399739010488 homotetramer interface [polypeptide binding]; other site 399739010489 homodimer interface [polypeptide binding]; other site 399739010490 FBP binding site [chemical binding]; other site 399739010491 protein IIAGlc interface [polypeptide binding]; other site 399739010492 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 399739010493 putative deacylase active site [active] 399739010494 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 399739010495 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 399739010496 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 399739010497 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 399739010498 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 399739010499 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 399739010500 heme binding site [chemical binding]; other site 399739010501 ferroxidase pore; other site 399739010502 ferroxidase diiron center [ion binding]; other site 399739010503 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399739010504 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399739010505 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739010506 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739010507 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739010508 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 399739010509 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 399739010510 S-adenosylmethionine binding site [chemical binding]; other site 399739010511 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 399739010512 Protein of unknown function DUF72; Region: DUF72; cl00777 399739010513 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 399739010514 Glycoprotease family; Region: Peptidase_M22; pfam00814 399739010515 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 399739010516 adenylate kinase; Reviewed; Region: adk; PRK00279 399739010517 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 399739010518 AMP-binding site [chemical binding]; other site 399739010519 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 399739010520 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 399739010521 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 399739010522 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 399739010523 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739010524 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739010525 ligand binding site [chemical binding]; other site 399739010526 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739010527 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739010528 Secretory lipase; Region: LIP; pfam03583 399739010529 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 399739010530 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 399739010531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 399739010532 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 399739010533 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 399739010534 dimer interface [polypeptide binding]; other site 399739010535 putative anticodon binding site; other site 399739010536 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 399739010537 motif 1; other site 399739010538 active site 399739010539 motif 2; other site 399739010540 motif 3; other site 399739010541 peptide chain release factor 2; Validated; Region: prfB; PRK00578 399739010542 This domain is found in peptide chain release factors; Region: PCRF; smart00937 399739010543 RF-1 domain; Region: RF-1; pfam00472 399739010544 Autotransporter beta-domain; Region: Autotransporter; smart00869 399739010545 choline dehydrogenase; Validated; Region: PRK02106 399739010546 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399739010547 high affinity sulphate transporter 1; Region: sulP; TIGR00815 399739010548 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399739010549 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399739010550 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 399739010551 Protein of unknown function (DUF533); Region: DUF533; pfam04391 399739010552 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 399739010553 putative metal binding site [ion binding]; other site 399739010554 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 399739010555 DHH family; Region: DHH; pfam01368 399739010556 DHHA1 domain; Region: DHHA1; pfam02272 399739010557 MarR family; Region: MarR_2; cl17246 399739010558 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 399739010559 putative active site [active] 399739010560 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 399739010561 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 399739010562 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 399739010563 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 399739010564 YaeQ protein; Region: YaeQ; pfam07152 399739010565 Part of AAA domain; Region: AAA_19; pfam13245 399739010566 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 399739010567 AAA domain; Region: AAA_12; pfam13087 399739010568 Catalytic domain of vertebrate phospholipase D6 and similar proteins; Region: PLDc_vPLD6_like; cd09171 399739010569 PLD-like domain; Region: PLDc_2; pfam13091 399739010570 putative active site [active] 399739010571 catalytic site [active] 399739010572 ATPase involved in DNA repair; Region: DUF3686; pfam12458 399739010573 AAA domain; Region: AAA_22; pfam13401 399739010574 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 399739010575 Walker A motif; other site 399739010576 ATP binding site [chemical binding]; other site 399739010577 Walker B motif; other site 399739010578 arginine finger; other site 399739010579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 399739010580 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 399739010581 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 399739010582 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 399739010583 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 399739010584 CoA-transferase family III; Region: CoA_transf_3; pfam02515 399739010585 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 399739010586 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 399739010587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739010588 catalytic residue [active] 399739010589 homoserine dehydrogenase; Provisional; Region: PRK06349 399739010590 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 399739010591 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 399739010592 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 399739010593 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 399739010594 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 399739010595 dimerization domain [polypeptide binding]; other site 399739010596 dimer interface [polypeptide binding]; other site 399739010597 catalytic residues [active] 399739010598 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 399739010599 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 399739010600 active site 399739010601 Int/Topo IB signature motif; other site 399739010602 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 399739010603 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 399739010604 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 399739010605 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 399739010606 RimM N-terminal domain; Region: RimM; pfam01782 399739010607 PRC-barrel domain; Region: PRC; pfam05239 399739010608 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 399739010609 signal recognition particle protein; Provisional; Region: PRK10867 399739010610 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 399739010611 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 399739010612 P loop; other site 399739010613 GTP binding site [chemical binding]; other site 399739010614 Signal peptide binding domain; Region: SRP_SPB; pfam02978 399739010615 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 399739010616 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 399739010617 Domain of unknown function DUF21; Region: DUF21; pfam01595 399739010618 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 399739010619 Transporter associated domain; Region: CorC_HlyC; smart01091 399739010620 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 399739010621 active site 399739010622 catalytic triad [active] 399739010623 oxyanion hole [active] 399739010624 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 399739010625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739010626 ATP-grasp domain; Region: ATP-grasp; pfam02222 399739010627 Predicted Fe-S protein [General function prediction only]; Region: COG3313 399739010628 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 399739010629 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 399739010630 trimer interface [polypeptide binding]; other site 399739010631 putative metal binding site [ion binding]; other site 399739010632 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 399739010633 putative active site [active] 399739010634 putative CoA binding site [chemical binding]; other site 399739010635 nudix motif; other site 399739010636 metal binding site [ion binding]; metal-binding site 399739010637 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 399739010638 nudix motif; other site 399739010639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 399739010640 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399739010641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 399739010642 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 399739010643 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 399739010644 dimerization interface [polypeptide binding]; other site 399739010645 ATP binding site [chemical binding]; other site 399739010646 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 399739010647 dimerization interface [polypeptide binding]; other site 399739010648 ATP binding site [chemical binding]; other site 399739010649 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 399739010650 putative active site [active] 399739010651 catalytic triad [active] 399739010652 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 399739010653 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 399739010654 substrate binding pocket [chemical binding]; other site 399739010655 membrane-bound complex binding site; other site 399739010656 hinge residues; other site 399739010657 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 399739010658 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739010659 catalytic residue [active] 399739010660 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 399739010661 nucleoside/Zn binding site; other site 399739010662 dimer interface [polypeptide binding]; other site 399739010663 catalytic motif [active] 399739010664 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 399739010665 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 399739010666 Multicopper oxidase; Region: Cu-oxidase; pfam00394 399739010667 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 399739010668 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 399739010669 tellurite resistance protein terB; Region: terB; cd07176 399739010670 putative metal binding site [ion binding]; other site 399739010671 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 399739010672 DEAD-like helicases superfamily; Region: DEXDc; smart00487 399739010673 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 399739010674 ATP binding site [chemical binding]; other site 399739010675 putative Mg++ binding site [ion binding]; other site 399739010676 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 399739010677 nucleotide binding region [chemical binding]; other site 399739010678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739010679 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739010680 Flagellin N-methylase; Region: FliB; cl00497 399739010681 ParA-like protein; Provisional; Region: PHA02518 399739010682 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 399739010683 P-loop; other site 399739010684 Magnesium ion binding site [ion binding]; other site 399739010685 BCCT family transporter; Region: BCCT; pfam02028 399739010686 Amino acid synthesis; Region: AA_synth; pfam06684 399739010687 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 399739010688 PGAP1-like protein; Region: PGAP1; pfam07819 399739010689 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399739010690 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 399739010691 NAD(P) binding site [chemical binding]; other site 399739010692 catalytic residues [active] 399739010693 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 399739010694 succinic semialdehyde dehydrogenase; Region: PLN02278 399739010695 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 399739010696 tetramerization interface [polypeptide binding]; other site 399739010697 NAD(P) binding site [chemical binding]; other site 399739010698 catalytic residues [active] 399739010699 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 399739010700 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739010701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739010702 DNA-binding site [nucleotide binding]; DNA binding site 399739010703 FCD domain; Region: FCD; pfam07729 399739010704 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 399739010705 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 399739010706 nudix motif; other site 399739010707 Uncharacterized conserved protein [Function unknown]; Region: COG5470 399739010708 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 399739010709 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 399739010710 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 399739010711 dimerization interface [polypeptide binding]; other site 399739010712 active site 399739010713 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 399739010714 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739010715 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 399739010716 dimer interface [polypeptide binding]; other site 399739010717 conserved gate region; other site 399739010718 putative PBP binding loops; other site 399739010719 ABC-ATPase subunit interface; other site 399739010720 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739010721 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 399739010722 dimer interface [polypeptide binding]; other site 399739010723 conserved gate region; other site 399739010724 putative PBP binding loops; other site 399739010725 ABC-ATPase subunit interface; other site 399739010726 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399739010727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739010728 Walker A/P-loop; other site 399739010729 ATP binding site [chemical binding]; other site 399739010730 Q-loop/lid; other site 399739010731 ABC transporter signature motif; other site 399739010732 Walker B; other site 399739010733 D-loop; other site 399739010734 H-loop/switch region; other site 399739010735 TOBE domain; Region: TOBE_2; pfam08402 399739010736 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 399739010737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739010738 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 399739010739 DNA binding residues [nucleotide binding] 399739010740 dimerization interface [polypeptide binding]; other site 399739010741 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 399739010742 PAS fold; Region: PAS_3; pfam08447 399739010743 putative active site [active] 399739010744 heme pocket [chemical binding]; other site 399739010745 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399739010746 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 399739010747 FMN-binding pocket [chemical binding]; other site 399739010748 flavin binding motif; other site 399739010749 phosphate binding motif [ion binding]; other site 399739010750 beta-alpha-beta structure motif; other site 399739010751 NAD binding pocket [chemical binding]; other site 399739010752 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 399739010753 catalytic loop [active] 399739010754 iron binding site [ion binding]; other site 399739010755 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 399739010756 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 399739010757 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739010758 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 399739010759 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 399739010760 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 399739010761 putative active site [active] 399739010762 putative substrate binding site [chemical binding]; other site 399739010763 putative cosubstrate binding site; other site 399739010764 catalytic site [active] 399739010765 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 399739010766 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 399739010767 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 399739010768 homodimer interface [polypeptide binding]; other site 399739010769 NADP binding site [chemical binding]; other site 399739010770 substrate binding site [chemical binding]; other site 399739010771 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 399739010772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739010773 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 399739010774 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 399739010775 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 399739010776 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 399739010777 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739010778 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 399739010779 PAS fold; Region: PAS_3; pfam08447 399739010780 putative active site [active] 399739010781 heme pocket [chemical binding]; other site 399739010782 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739010783 putative CheW interface [polypeptide binding]; other site 399739010784 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 399739010785 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 399739010786 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 399739010787 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 399739010788 active site 399739010789 FMN binding site [chemical binding]; other site 399739010790 substrate binding site [chemical binding]; other site 399739010791 3Fe-4S cluster binding site [ion binding]; other site 399739010792 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 399739010793 domain_subunit interface; other site 399739010794 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 399739010795 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 399739010796 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 399739010797 putative active site [active] 399739010798 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 399739010799 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 399739010800 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739010801 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 399739010802 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 399739010803 non-specific DNA binding site [nucleotide binding]; other site 399739010804 salt bridge; other site 399739010805 sequence-specific DNA binding site [nucleotide binding]; other site 399739010806 Cupin domain; Region: Cupin_2; pfam07883 399739010807 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 399739010808 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 399739010809 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 399739010810 putative active site [active] 399739010811 putative substrate binding site [chemical binding]; other site 399739010812 putative cosubstrate binding site; other site 399739010813 catalytic site [active] 399739010814 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 399739010815 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 399739010816 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 399739010817 homodimer interface [polypeptide binding]; other site 399739010818 NADP binding site [chemical binding]; other site 399739010819 substrate binding site [chemical binding]; other site 399739010820 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 399739010821 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739010822 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 399739010823 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 399739010824 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 399739010825 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 399739010826 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739010827 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 399739010828 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 399739010829 Transcriptional regulator [Transcription]; Region: IclR; COG1414 399739010830 Bacterial transcriptional regulator; Region: IclR; pfam01614 399739010831 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 399739010832 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 399739010833 Isochorismatase family; Region: Isochorismatase; pfam00857 399739010834 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 399739010835 catalytic triad [active] 399739010836 conserved cis-peptide bond; other site 399739010837 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 399739010838 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 399739010839 integrase; Provisional; Region: PRK09692 399739010840 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 399739010841 active site 399739010842 Int/Topo IB signature motif; other site 399739010843 GMP synthase; Reviewed; Region: guaA; PRK00074 399739010844 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 399739010845 AMP/PPi binding site [chemical binding]; other site 399739010846 candidate oxyanion hole; other site 399739010847 catalytic triad [active] 399739010848 potential glutamine specificity residues [chemical binding]; other site 399739010849 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 399739010850 ATP Binding subdomain [chemical binding]; other site 399739010851 Ligand Binding sites [chemical binding]; other site 399739010852 Dimerization subdomain; other site 399739010853 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 399739010854 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 399739010855 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 399739010856 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 399739010857 active site 399739010858 Predicted membrane protein [Function unknown]; Region: COG4125 399739010859 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 399739010860 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 399739010861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739010862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739010863 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 399739010864 dimerization interface [polypeptide binding]; other site 399739010865 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 399739010866 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 399739010867 generic binding surface II; other site 399739010868 generic binding surface I; other site 399739010869 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399739010870 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739010871 2-isopropylmalate synthase; Validated; Region: PRK03739 399739010872 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 399739010873 active site 399739010874 catalytic residues [active] 399739010875 metal binding site [ion binding]; metal-binding site 399739010876 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 399739010877 C-N hydrolase family amidase; Provisional; Region: PRK10438 399739010878 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 399739010879 putative active site [active] 399739010880 catalytic triad [active] 399739010881 dimer interface [polypeptide binding]; other site 399739010882 multimer interface [polypeptide binding]; other site 399739010883 methionine aminotransferase; Validated; Region: PRK09082 399739010884 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 399739010885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739010886 homodimer interface [polypeptide binding]; other site 399739010887 catalytic residue [active] 399739010888 GTP-binding protein Der; Reviewed; Region: PRK00093 399739010889 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 399739010890 G1 box; other site 399739010891 GTP/Mg2+ binding site [chemical binding]; other site 399739010892 Switch I region; other site 399739010893 G2 box; other site 399739010894 Switch II region; other site 399739010895 G3 box; other site 399739010896 G4 box; other site 399739010897 G5 box; other site 399739010898 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 399739010899 G1 box; other site 399739010900 GTP/Mg2+ binding site [chemical binding]; other site 399739010901 Switch I region; other site 399739010902 G2 box; other site 399739010903 G3 box; other site 399739010904 Switch II region; other site 399739010905 G4 box; other site 399739010906 G5 box; other site 399739010907 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 399739010908 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 399739010909 Trp docking motif [polypeptide binding]; other site 399739010910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 399739010911 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 399739010912 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 399739010913 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 399739010914 dimer interface [polypeptide binding]; other site 399739010915 motif 1; other site 399739010916 active site 399739010917 motif 2; other site 399739010918 motif 3; other site 399739010919 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 399739010920 anticodon binding site; other site 399739010921 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 399739010922 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 399739010923 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 399739010924 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 399739010925 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 399739010926 non-specific DNA binding site [nucleotide binding]; other site 399739010927 salt bridge; other site 399739010928 sequence-specific DNA binding site [nucleotide binding]; other site 399739010929 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 399739010930 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 399739010931 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 399739010932 binding surface 399739010933 TPR motif; other site 399739010934 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 399739010935 TPR motif; other site 399739010936 binding surface 399739010937 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 399739010938 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 399739010939 FeS/SAM binding site; other site 399739010940 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 399739010941 active site 399739010942 multimer interface [polypeptide binding]; other site 399739010943 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 399739010944 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399739010945 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 399739010946 catalytic loop [active] 399739010947 iron binding site [ion binding]; other site 399739010948 chaperone protein HscA; Provisional; Region: hscA; PRK05183 399739010949 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 399739010950 nucleotide binding site [chemical binding]; other site 399739010951 putative NEF/HSP70 interaction site [polypeptide binding]; other site 399739010952 SBD interface [polypeptide binding]; other site 399739010953 co-chaperone HscB; Provisional; Region: hscB; PRK00294 399739010954 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 399739010955 HSP70 interaction site [polypeptide binding]; other site 399739010956 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 399739010957 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 399739010958 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 399739010959 trimerization site [polypeptide binding]; other site 399739010960 active site 399739010961 cysteine desulfurase; Provisional; Region: PRK14012 399739010962 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 399739010963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739010964 catalytic residue [active] 399739010965 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 399739010966 Rrf2 family protein; Region: rrf2_super; TIGR00738 399739010967 serine O-acetyltransferase; Region: cysE; TIGR01172 399739010968 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 399739010969 trimer interface [polypeptide binding]; other site 399739010970 active site 399739010971 substrate binding site [chemical binding]; other site 399739010972 CoA binding site [chemical binding]; other site 399739010973 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 399739010974 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 399739010975 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 399739010976 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 399739010977 active site 399739010978 dimerization interface [polypeptide binding]; other site 399739010979 hypothetical protein; Provisional; Region: PRK11280 399739010980 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 399739010981 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 399739010982 Protein export membrane protein; Region: SecD_SecF; cl14618 399739010983 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 399739010984 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 399739010985 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 399739010986 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 399739010987 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 399739010988 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 399739010989 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 399739010990 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 399739010991 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 399739010992 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 399739010993 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 399739010994 substrate binding pocket [chemical binding]; other site 399739010995 membrane-bound complex binding site; other site 399739010996 hinge residues; other site 399739010997 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 399739010998 DNA-binding site [nucleotide binding]; DNA binding site 399739010999 RNA-binding motif; other site 399739011000 RDD family; Region: RDD; pfam06271 399739011001 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 399739011002 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 399739011003 Predicted permeases [General function prediction only]; Region: COG0795 399739011004 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 399739011005 multifunctional aminopeptidase A; Provisional; Region: PRK00913 399739011006 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 399739011007 interface (dimer of trimers) [polypeptide binding]; other site 399739011008 Substrate-binding/catalytic site; other site 399739011009 Zn-binding sites [ion binding]; other site 399739011010 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 399739011011 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 399739011012 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 399739011013 HIGH motif; other site 399739011014 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 399739011015 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 399739011016 active site 399739011017 KMSKS motif; other site 399739011018 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 399739011019 tRNA binding surface [nucleotide binding]; other site 399739011020 anticodon binding site; other site 399739011021 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 399739011022 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 399739011023 NHAD transporter family protein; Provisional; Region: PLN00137 399739011024 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 399739011025 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 399739011026 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 399739011027 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739011028 TrkA-C domain; Region: TrkA_C; pfam02080 399739011029 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399739011030 TrkA-C domain; Region: TrkA_C; pfam02080 399739011031 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 399739011032 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 399739011033 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 399739011034 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 399739011035 transmembrane helices; other site 399739011036 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 399739011037 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 399739011038 Isochorismatase family; Region: Isochorismatase; pfam00857 399739011039 catalytic triad [active] 399739011040 dimer interface [polypeptide binding]; other site 399739011041 conserved cis-peptide bond; other site 399739011042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739011043 AAA domain; Region: AAA_23; pfam13476 399739011044 Walker A/P-loop; other site 399739011045 ATP binding site [chemical binding]; other site 399739011046 Q-loop/lid; other site 399739011047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739011048 ABC transporter signature motif; other site 399739011049 Walker B; other site 399739011050 D-loop; other site 399739011051 H-loop/switch region; other site 399739011052 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739011053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739011054 metal binding site [ion binding]; metal-binding site 399739011055 active site 399739011056 I-site; other site 399739011057 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 399739011058 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 399739011059 NAD(P) binding site [chemical binding]; other site 399739011060 exonuclease subunit SbcD; Provisional; Region: PRK10966 399739011061 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 399739011062 active site 399739011063 metal binding site [ion binding]; metal-binding site 399739011064 DNA binding site [nucleotide binding] 399739011065 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 399739011066 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 399739011067 S-adenosylmethionine binding site [chemical binding]; other site 399739011068 Amino acid permease; Region: AA_permease_2; pfam13520 399739011069 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739011070 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 399739011071 putative DNA binding site [nucleotide binding]; other site 399739011072 putative Zn2+ binding site [ion binding]; other site 399739011073 AsnC family; Region: AsnC_trans_reg; pfam01037 399739011074 putative transporter; Provisional; Region: PRK11021 399739011075 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 399739011076 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399739011077 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 399739011078 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 399739011079 PA/protease or protease-like domain interface [polypeptide binding]; other site 399739011080 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 399739011081 Peptidase family M28; Region: Peptidase_M28; pfam04389 399739011082 active site 399739011083 metal binding site [ion binding]; metal-binding site 399739011084 Nucleoid-associated protein [General function prediction only]; Region: COG3081 399739011085 nucleoid-associated protein NdpA; Validated; Region: PRK00378 399739011086 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 399739011087 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 399739011088 catalytic residues [active] 399739011089 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399739011090 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 399739011091 C-terminal domain interface [polypeptide binding]; other site 399739011092 GSH binding site (G-site) [chemical binding]; other site 399739011093 dimer interface [polypeptide binding]; other site 399739011094 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 399739011095 substrate binding pocket (H-site) [chemical binding]; other site 399739011096 N-terminal domain interface [polypeptide binding]; other site 399739011097 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 399739011098 GIY-YIG motif/motif A; other site 399739011099 putative active site [active] 399739011100 putative metal binding site [ion binding]; other site 399739011101 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 399739011102 SnoaL-like domain; Region: SnoaL_2; pfam12680 399739011103 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 399739011104 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 399739011105 conserved cys residue [active] 399739011106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739011107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739011108 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 399739011109 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739011110 Walker A/P-loop; other site 399739011111 ATP binding site [chemical binding]; other site 399739011112 Q-loop/lid; other site 399739011113 ABC transporter signature motif; other site 399739011114 Walker B; other site 399739011115 D-loop; other site 399739011116 H-loop/switch region; other site 399739011117 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739011118 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 399739011119 dimer interface [polypeptide binding]; other site 399739011120 conserved gate region; other site 399739011121 putative PBP binding loops; other site 399739011122 ABC-ATPase subunit interface; other site 399739011123 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 399739011124 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 399739011125 conserved gate region; other site 399739011126 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 399739011127 dimer interface [polypeptide binding]; other site 399739011128 conserved gate region; other site 399739011129 putative PBP binding loops; other site 399739011130 ABC-ATPase subunit interface; other site 399739011131 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 399739011132 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 399739011133 substrate binding pocket [chemical binding]; other site 399739011134 membrane-bound complex binding site; other site 399739011135 hinge residues; other site 399739011136 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 399739011137 AMP-binding domain protein; Validated; Region: PRK07529 399739011138 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399739011139 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 399739011140 acyl-activating enzyme (AAE) consensus motif; other site 399739011141 putative AMP binding site [chemical binding]; other site 399739011142 putative active site [active] 399739011143 putative CoA binding site [chemical binding]; other site 399739011144 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399739011145 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 399739011146 ligand binding site [chemical binding]; other site 399739011147 flexible hinge region; other site 399739011148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739011149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739011150 metal binding site [ion binding]; metal-binding site 399739011151 active site 399739011152 I-site; other site 399739011153 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 399739011154 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 399739011155 active site 399739011156 dimer interface [polypeptide binding]; other site 399739011157 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 399739011158 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 399739011159 ATP binding site [chemical binding]; other site 399739011160 Mg++ binding site [ion binding]; other site 399739011161 motif III; other site 399739011162 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 399739011163 nucleotide binding region [chemical binding]; other site 399739011164 ATP-binding site [chemical binding]; other site 399739011165 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 399739011166 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 399739011167 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739011168 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739011169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 399739011170 YheO-like PAS domain; Region: PAS_6; pfam08348 399739011171 HTH domain; Region: HTH_22; pfam13309 399739011172 Isochorismatase family; Region: Isochorismatase; pfam00857 399739011173 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 399739011174 catalytic triad [active] 399739011175 dimer interface [polypeptide binding]; other site 399739011176 conserved cis-peptide bond; other site 399739011177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739011178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739011179 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 399739011180 putative effector binding pocket; other site 399739011181 dimerization interface [polypeptide binding]; other site 399739011182 DNA polymerase II; Reviewed; Region: PRK05762 399739011183 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 399739011184 active site 399739011185 catalytic site [active] 399739011186 substrate binding site [chemical binding]; other site 399739011187 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 399739011188 active site 399739011189 metal-binding site 399739011190 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 399739011191 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 399739011192 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 399739011193 TrkA-N domain; Region: TrkA_N; pfam02254 399739011194 TrkA-C domain; Region: TrkA_C; pfam02080 399739011195 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 399739011196 heme-binding site [chemical binding]; other site 399739011197 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399739011198 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739011199 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 399739011200 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 399739011201 S-adenosylmethionine binding site [chemical binding]; other site 399739011202 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 399739011203 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 399739011204 substrate binding pocket [chemical binding]; other site 399739011205 membrane-bound complex binding site; other site 399739011206 hinge residues; other site 399739011207 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 399739011208 GAF domain; Region: GAF; pfam01590 399739011209 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 399739011210 Walker A motif; other site 399739011211 ATP binding site [chemical binding]; other site 399739011212 Walker B motif; other site 399739011213 arginine finger; other site 399739011214 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739011215 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 399739011216 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 399739011217 heme-binding site [chemical binding]; other site 399739011218 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 399739011219 FAD binding pocket [chemical binding]; other site 399739011220 FAD binding motif [chemical binding]; other site 399739011221 phosphate binding motif [ion binding]; other site 399739011222 beta-alpha-beta structure motif; other site 399739011223 NAD binding pocket [chemical binding]; other site 399739011224 Heme binding pocket [chemical binding]; other site 399739011225 NnrS protein; Region: NnrS; pfam05940 399739011226 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 399739011227 hypothetical protein; Provisional; Region: PRK08960 399739011228 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 399739011229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739011230 homodimer interface [polypeptide binding]; other site 399739011231 catalytic residue [active] 399739011232 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 399739011233 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 399739011234 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 399739011235 active site 399739011236 HIGH motif; other site 399739011237 nucleotide binding site [chemical binding]; other site 399739011238 KMSKS motif; other site 399739011239 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 399739011240 Na binding site [ion binding]; other site 399739011241 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 399739011242 putative active site [active] 399739011243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739011244 heme pocket [chemical binding]; other site 399739011245 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 399739011246 dimer interface [polypeptide binding]; other site 399739011247 phosphorylation site [posttranslational modification] 399739011248 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 399739011249 ATP binding site [chemical binding]; other site 399739011250 Mg2+ binding site [ion binding]; other site 399739011251 G-X-G motif; other site 399739011252 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739011253 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 399739011254 active site 399739011255 phosphorylation site [posttranslational modification] 399739011256 intermolecular recognition site; other site 399739011257 dimerization interface [polypeptide binding]; other site 399739011258 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 399739011259 Walker A motif; other site 399739011260 ATP binding site [chemical binding]; other site 399739011261 Walker B motif; other site 399739011262 arginine finger; other site 399739011263 poly(A) polymerase; Region: pcnB; TIGR01942 399739011264 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 399739011265 active site 399739011266 NTP binding site [chemical binding]; other site 399739011267 metal binding triad [ion binding]; metal-binding site 399739011268 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 399739011269 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 399739011270 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 399739011271 catalytic center binding site [active] 399739011272 ATP binding site [chemical binding]; other site 399739011273 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 399739011274 oligomerization interface [polypeptide binding]; other site 399739011275 active site 399739011276 metal binding site [ion binding]; metal-binding site 399739011277 pantoate--beta-alanine ligase; Region: panC; TIGR00018 399739011278 Pantoate-beta-alanine ligase; Region: PanC; cd00560 399739011279 active site 399739011280 ATP-binding site [chemical binding]; other site 399739011281 pantoate-binding site; other site 399739011282 HXXH motif; other site 399739011283 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 399739011284 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 399739011285 active site 399739011286 dimer interface [polypeptide binding]; other site 399739011287 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 399739011288 dimer interface [polypeptide binding]; other site 399739011289 active site 399739011290 acetyl-CoA synthetase; Provisional; Region: PRK00174 399739011291 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 399739011292 active site 399739011293 CoA binding site [chemical binding]; other site 399739011294 acyl-activating enzyme (AAE) consensus motif; other site 399739011295 AMP binding site [chemical binding]; other site 399739011296 acetate binding site [chemical binding]; other site 399739011297 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 399739011298 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 399739011299 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 399739011300 dimer interface [polypeptide binding]; other site 399739011301 active site 399739011302 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 399739011303 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 399739011304 putative RNA binding site [nucleotide binding]; other site 399739011305 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399739011306 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399739011307 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399739011308 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739011309 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 399739011310 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 399739011311 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 399739011312 CsbD-like; Region: CsbD; cl17424 399739011313 BON domain; Region: BON; pfam04972 399739011314 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 399739011315 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 399739011316 RNase E interface [polypeptide binding]; other site 399739011317 trimer interface [polypeptide binding]; other site 399739011318 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 399739011319 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 399739011320 RNase E interface [polypeptide binding]; other site 399739011321 trimer interface [polypeptide binding]; other site 399739011322 active site 399739011323 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 399739011324 putative nucleic acid binding region [nucleotide binding]; other site 399739011325 G-X-X-G motif; other site 399739011326 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 399739011327 RNA binding site [nucleotide binding]; other site 399739011328 domain interface; other site 399739011329 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 399739011330 16S/18S rRNA binding site [nucleotide binding]; other site 399739011331 S13e-L30e interaction site [polypeptide binding]; other site 399739011332 25S rRNA binding site [nucleotide binding]; other site 399739011333 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 399739011334 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 399739011335 RNA binding site [nucleotide binding]; other site 399739011336 active site 399739011337 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 399739011338 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 399739011339 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 399739011340 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 399739011341 translation initiation factor IF-2; Region: IF-2; TIGR00487 399739011342 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 399739011343 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 399739011344 G1 box; other site 399739011345 putative GEF interaction site [polypeptide binding]; other site 399739011346 GTP/Mg2+ binding site [chemical binding]; other site 399739011347 Switch I region; other site 399739011348 G2 box; other site 399739011349 G3 box; other site 399739011350 Switch II region; other site 399739011351 G4 box; other site 399739011352 G5 box; other site 399739011353 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 399739011354 Translation-initiation factor 2; Region: IF-2; pfam11987 399739011355 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 399739011356 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 399739011357 NusA N-terminal domain; Region: NusA_N; pfam08529 399739011358 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 399739011359 RNA binding site [nucleotide binding]; other site 399739011360 homodimer interface [polypeptide binding]; other site 399739011361 NusA-like KH domain; Region: KH_5; pfam13184 399739011362 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 399739011363 G-X-X-G motif; other site 399739011364 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 399739011365 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 399739011366 ribosome maturation protein RimP; Reviewed; Region: PRK00092 399739011367 Sm and related proteins; Region: Sm_like; cl00259 399739011368 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 399739011369 putative oligomer interface [polypeptide binding]; other site 399739011370 putative RNA binding site [nucleotide binding]; other site 399739011371 Preprotein translocase SecG subunit; Region: SecG; pfam03840 399739011372 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 399739011373 triosephosphate isomerase; Provisional; Region: PRK14567 399739011374 substrate binding site [chemical binding]; other site 399739011375 dimer interface [polypeptide binding]; other site 399739011376 catalytic triad [active] 399739011377 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 399739011378 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 399739011379 active site 399739011380 substrate binding site [chemical binding]; other site 399739011381 metal binding site [ion binding]; metal-binding site 399739011382 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 399739011383 dihydropteroate synthase; Region: DHPS; TIGR01496 399739011384 substrate binding pocket [chemical binding]; other site 399739011385 dimer interface [polypeptide binding]; other site 399739011386 inhibitor binding site; inhibition site 399739011387 FtsH Extracellular; Region: FtsH_ext; pfam06480 399739011388 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 399739011389 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 399739011390 Walker A motif; other site 399739011391 ATP binding site [chemical binding]; other site 399739011392 Walker B motif; other site 399739011393 arginine finger; other site 399739011394 Peptidase family M41; Region: Peptidase_M41; pfam01434 399739011395 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 399739011396 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 399739011397 S-adenosylmethionine binding site [chemical binding]; other site 399739011398 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 399739011399 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 399739011400 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 399739011401 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399739011402 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 399739011403 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739011404 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399739011405 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 399739011406 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739011407 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739011408 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 399739011409 IMP binding site; other site 399739011410 dimer interface [polypeptide binding]; other site 399739011411 interdomain contacts; other site 399739011412 partial ornithine binding site; other site 399739011413 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 399739011414 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 399739011415 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 399739011416 catalytic site [active] 399739011417 subunit interface [polypeptide binding]; other site 399739011418 dihydrodipicolinate reductase; Provisional; Region: PRK00048 399739011419 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 399739011420 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 399739011421 chaperone protein DnaJ; Provisional; Region: PRK10767 399739011422 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 399739011423 HSP70 interaction site [polypeptide binding]; other site 399739011424 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 399739011425 substrate binding site [polypeptide binding]; other site 399739011426 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 399739011427 Zn binding sites [ion binding]; other site 399739011428 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 399739011429 dimer interface [polypeptide binding]; other site 399739011430 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 399739011431 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 399739011432 nucleotide binding site [chemical binding]; other site 399739011433 NEF interaction site [polypeptide binding]; other site 399739011434 SBD interface [polypeptide binding]; other site 399739011435 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 399739011436 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 399739011437 dimer interface [polypeptide binding]; other site 399739011438 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 399739011439 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 399739011440 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 399739011441 Walker A/P-loop; other site 399739011442 ATP binding site [chemical binding]; other site 399739011443 Q-loop/lid; other site 399739011444 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 399739011445 ABC transporter signature motif; other site 399739011446 Walker B; other site 399739011447 D-loop; other site 399739011448 H-loop/switch region; other site 399739011449 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 399739011450 metal binding site 2 [ion binding]; metal-binding site 399739011451 putative DNA binding helix; other site 399739011452 metal binding site 1 [ion binding]; metal-binding site 399739011453 dimer interface [polypeptide binding]; other site 399739011454 structural Zn2+ binding site [ion binding]; other site 399739011455 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 399739011456 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 399739011457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 399739011458 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 399739011459 putative coenzyme Q binding site [chemical binding]; other site 399739011460 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 399739011461 Na2 binding site [ion binding]; other site 399739011462 putative substrate binding site 1 [chemical binding]; other site 399739011463 Na binding site 1 [ion binding]; other site 399739011464 putative substrate binding site 2 [chemical binding]; other site 399739011465 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 399739011466 SmpB-tmRNA interface; other site 399739011467 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 399739011468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739011469 DNA-binding site [nucleotide binding]; DNA binding site 399739011470 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399739011471 L-lactate permease; Region: Lactate_perm; cl00701 399739011472 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 399739011473 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 399739011474 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 399739011475 phosphate binding site [ion binding]; other site 399739011476 D-lactate dehydrogenase; Provisional; Region: PRK11183 399739011477 FAD binding domain; Region: FAD_binding_4; pfam01565 399739011478 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 399739011479 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739011480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739011481 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739011482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739011483 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739011484 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739011485 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739011486 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 399739011487 Clp amino terminal domain; Region: Clp_N; pfam02861 399739011488 Clp amino terminal domain; Region: Clp_N; pfam02861 399739011489 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 399739011490 Walker A motif; other site 399739011491 ATP binding site [chemical binding]; other site 399739011492 Walker B motif; other site 399739011493 arginine finger; other site 399739011494 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 399739011495 Walker A motif; other site 399739011496 ATP binding site [chemical binding]; other site 399739011497 Walker B motif; other site 399739011498 arginine finger; other site 399739011499 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 399739011500 Nitroreductase family; Region: Nitroreductase; pfam00881 399739011501 FMN binding site [chemical binding]; other site 399739011502 dimer interface [polypeptide binding]; other site 399739011503 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 399739011504 catalytic residues [active] 399739011505 dimer interface [polypeptide binding]; other site 399739011506 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 399739011507 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399739011508 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 399739011509 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 399739011510 propionate/acetate kinase; Provisional; Region: PRK12379 399739011511 phosphate acetyltransferase; Reviewed; Region: PRK05632 399739011512 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 399739011513 DRTGG domain; Region: DRTGG; pfam07085 399739011514 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 399739011515 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739011516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 399739011517 putative acyl-acceptor binding pocket; other site 399739011518 Response regulator receiver domain; Region: Response_reg; pfam00072 399739011519 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 399739011520 active site 399739011521 phosphorylation site [posttranslational modification] 399739011522 intermolecular recognition site; other site 399739011523 dimerization interface [polypeptide binding]; other site 399739011524 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 399739011525 PAS domain; Region: PAS_9; pfam13426 399739011526 putative active site [active] 399739011527 heme pocket [chemical binding]; other site 399739011528 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739011529 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739011530 metal binding site [ion binding]; metal-binding site 399739011531 active site 399739011532 I-site; other site 399739011533 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 399739011534 CHASE domain; Region: CHASE; pfam03924 399739011535 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 399739011536 PAS domain; Region: PAS_9; pfam13426 399739011537 putative active site [active] 399739011538 heme pocket [chemical binding]; other site 399739011539 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739011540 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 399739011541 putative active site [active] 399739011542 heme pocket [chemical binding]; other site 399739011543 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 399739011544 dimer interface [polypeptide binding]; other site 399739011545 phosphorylation site [posttranslational modification] 399739011546 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 399739011547 ATP binding site [chemical binding]; other site 399739011548 Mg2+ binding site [ion binding]; other site 399739011549 G-X-G motif; other site 399739011550 Response regulator receiver domain; Region: Response_reg; pfam00072 399739011551 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 399739011552 active site 399739011553 phosphorylation site [posttranslational modification] 399739011554 intermolecular recognition site; other site 399739011555 dimerization interface [polypeptide binding]; other site 399739011556 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739011557 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 399739011558 active site 399739011559 phosphorylation site [posttranslational modification] 399739011560 intermolecular recognition site; other site 399739011561 Response regulator receiver domain; Region: Response_reg; pfam00072 399739011562 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 399739011563 active site 399739011564 phosphorylation site [posttranslational modification] 399739011565 intermolecular recognition site; other site 399739011566 dimerization interface [polypeptide binding]; other site 399739011567 putative outer membrane lipoprotein; Provisional; Region: PRK10510 399739011568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739011569 ligand binding site [chemical binding]; other site 399739011570 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399739011571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399739011572 ligand binding site [chemical binding]; other site 399739011573 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 399739011574 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739011575 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739011576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739011577 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 399739011578 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 399739011579 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 399739011580 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 399739011581 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739011582 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 399739011583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739011584 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 399739011585 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 399739011586 DNA binding residues [nucleotide binding] 399739011587 dimerization interface [polypeptide binding]; other site 399739011588 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739011589 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739011590 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399739011591 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 399739011592 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 399739011593 dimer interface [polypeptide binding]; other site 399739011594 acyl-activating enzyme (AAE) consensus motif; other site 399739011595 putative active site [active] 399739011596 AMP binding site [chemical binding]; other site 399739011597 putative CoA binding site [chemical binding]; other site 399739011598 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 399739011599 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 399739011600 dimer interface [polypeptide binding]; other site 399739011601 active site 399739011602 LysE type translocator; Region: LysE; cl00565 399739011603 glycerate dehydrogenase; Provisional; Region: PRK06487 399739011604 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 399739011605 putative ligand binding site [chemical binding]; other site 399739011606 putative NAD binding site [chemical binding]; other site 399739011607 catalytic site [active] 399739011608 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 399739011609 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 399739011610 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 399739011611 S-adenosylmethionine binding site [chemical binding]; other site 399739011612 Predicted membrane protein [Function unknown]; Region: COG2119 399739011613 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 399739011614 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 399739011615 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 399739011616 Peptidase family M48; Region: Peptidase_M48; pfam01435 399739011617 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 399739011618 dimerization interface [polypeptide binding]; other site 399739011619 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739011620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739011621 dimer interface [polypeptide binding]; other site 399739011622 putative CheW interface [polypeptide binding]; other site 399739011623 Uncharacterized conserved protein [Function unknown]; Region: COG2135 399739011624 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 399739011625 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 399739011626 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739011627 putative acyl-acceptor binding pocket; other site 399739011628 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 399739011629 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 399739011630 CreA protein; Region: CreA; pfam05981 399739011631 gamma-glutamyl kinase; Provisional; Region: PRK05429 399739011632 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 399739011633 nucleotide binding site [chemical binding]; other site 399739011634 homotetrameric interface [polypeptide binding]; other site 399739011635 putative phosphate binding site [ion binding]; other site 399739011636 putative allosteric binding site; other site 399739011637 PUA domain; Region: PUA; pfam01472 399739011638 GTPase CgtA; Reviewed; Region: obgE; PRK12298 399739011639 GTP1/OBG; Region: GTP1_OBG; pfam01018 399739011640 Obg GTPase; Region: Obg; cd01898 399739011641 G1 box; other site 399739011642 GTP/Mg2+ binding site [chemical binding]; other site 399739011643 Switch I region; other site 399739011644 G2 box; other site 399739011645 G3 box; other site 399739011646 Switch II region; other site 399739011647 G4 box; other site 399739011648 G5 box; other site 399739011649 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 399739011650 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 399739011651 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 399739011652 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 399739011653 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 399739011654 substrate binding pocket [chemical binding]; other site 399739011655 chain length determination region; other site 399739011656 substrate-Mg2+ binding site; other site 399739011657 catalytic residues [active] 399739011658 aspartate-rich region 1; other site 399739011659 active site lid residues [active] 399739011660 aspartate-rich region 2; other site 399739011661 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 399739011662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739011663 NAD(P) binding site [chemical binding]; other site 399739011664 active site 399739011665 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 399739011666 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 399739011667 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 399739011668 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 399739011669 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 399739011670 oligomerisation interface [polypeptide binding]; other site 399739011671 mobile loop; other site 399739011672 roof hairpin; other site 399739011673 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 399739011674 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 399739011675 ring oligomerisation interface [polypeptide binding]; other site 399739011676 ATP/Mg binding site [chemical binding]; other site 399739011677 stacking interactions; other site 399739011678 hinge regions; other site 399739011679 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 399739011680 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 399739011681 putative metal binding site [ion binding]; other site 399739011682 Uncharacterized conserved protein [Function unknown]; Region: COG1432 399739011683 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 399739011684 Uncharacterized conserved protein [Function unknown]; Region: COG4748 399739011685 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 399739011686 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 399739011687 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399739011688 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399739011689 tetrameric interface [polypeptide binding]; other site 399739011690 NAD binding site [chemical binding]; other site 399739011691 catalytic residues [active] 399739011692 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 399739011693 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 399739011694 inhibitor-cofactor binding pocket; inhibition site 399739011695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739011696 catalytic residue [active] 399739011697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739011698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739011699 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 399739011700 dimerization interface [polypeptide binding]; other site 399739011701 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 399739011702 xanthine permease; Region: pbuX; TIGR03173 399739011703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739011704 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 399739011705 Uncharacterized conserved protein [Function unknown]; Region: COG1739 399739011706 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 399739011707 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 399739011708 Bacterial protein of unknown function (DUF922); Region: DUF922; pfam06037 399739011709 short chain dehydrogenase; Provisional; Region: PRK08177 399739011710 NAD(P) binding site [chemical binding]; other site 399739011711 active site 399739011712 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 399739011713 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 399739011714 DNA binding residues [nucleotide binding] 399739011715 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 399739011716 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 399739011717 active site 399739011718 putative substrate binding pocket [chemical binding]; other site 399739011719 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 399739011720 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 399739011721 active site 399739011722 purine riboside binding site [chemical binding]; other site 399739011723 Protein of unknown function (DUF461); Region: DUF461; pfam04314 399739011724 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399739011725 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 399739011726 N-terminal plug; other site 399739011727 ligand-binding site [chemical binding]; other site 399739011728 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 399739011729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739011730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739011731 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 399739011732 putative effector binding pocket; other site 399739011733 dimerization interface [polypeptide binding]; other site 399739011734 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 399739011735 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 399739011736 putative NAD(P) binding site [chemical binding]; other site 399739011737 dimer interface [polypeptide binding]; other site 399739011738 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 399739011739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739011740 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 399739011741 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 399739011742 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399739011743 HlyD family secretion protein; Region: HlyD_3; pfam13437 399739011744 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 399739011745 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 399739011746 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 399739011747 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 399739011748 active site 399739011749 motif I; other site 399739011750 motif II; other site 399739011751 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 399739011752 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 399739011753 active site 399739011754 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 399739011755 catalytic triad [active] 399739011756 dimer interface [polypeptide binding]; other site 399739011757 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 399739011758 NADPH bind site [chemical binding]; other site 399739011759 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 399739011760 putative FMN binding site [chemical binding]; other site 399739011761 NADPH bind site [chemical binding]; other site 399739011762 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399739011763 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 399739011764 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399739011765 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 399739011766 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 399739011767 putative active site [active] 399739011768 Zn binding site [ion binding]; other site 399739011769 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 399739011770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399739011771 catalytic residue [active] 399739011772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739011773 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 399739011774 Response regulator receiver domain; Region: Response_reg; pfam00072 399739011775 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 399739011776 active site 399739011777 phosphorylation site [posttranslational modification] 399739011778 intermolecular recognition site; other site 399739011779 dimerization interface [polypeptide binding]; other site 399739011780 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 399739011781 PAS fold; Region: PAS_4; pfam08448 399739011782 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 399739011783 putative active site [active] 399739011784 heme pocket [chemical binding]; other site 399739011785 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_17; cd08356 399739011786 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739011787 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 399739011788 DEAD-like helicases superfamily; Region: DEXDc; smart00487 399739011789 ATP binding site [chemical binding]; other site 399739011790 Mg++ binding site [ion binding]; other site 399739011791 motif III; other site 399739011792 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 399739011793 nucleotide binding region [chemical binding]; other site 399739011794 ATP-binding site [chemical binding]; other site 399739011795 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 399739011796 active site 399739011797 catalytic site [active] 399739011798 substrate binding site [chemical binding]; other site 399739011799 Uncharacterized conserved protein [Function unknown]; Region: COG1432 399739011800 LabA_like proteins; Region: LabA; cd10911 399739011801 putative metal binding site [ion binding]; other site 399739011802 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 399739011803 putative deacylase active site [active] 399739011804 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 399739011805 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739011806 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 399739011807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739011808 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 399739011809 substrate binding pocket [chemical binding]; other site 399739011810 membrane-bound complex binding site; other site 399739011811 hinge residues; other site 399739011812 short chain dehydrogenase; Provisional; Region: PRK06181 399739011813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739011814 NAD(P) binding site [chemical binding]; other site 399739011815 active site 399739011816 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399739011817 putative catalytic site [active] 399739011818 putative metal binding site [ion binding]; other site 399739011819 putative phosphate binding site [ion binding]; other site 399739011820 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739011821 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 399739011822 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 399739011823 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399739011824 catalytic residues [active] 399739011825 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 399739011826 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 399739011827 ATP binding site [chemical binding]; other site 399739011828 putative Mg++ binding site [ion binding]; other site 399739011829 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 399739011830 nucleotide binding region [chemical binding]; other site 399739011831 ATP-binding site [chemical binding]; other site 399739011832 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 399739011833 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 399739011834 Cation efflux family; Region: Cation_efflux; cl00316 399739011835 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739011836 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 399739011837 putative DNA binding site [nucleotide binding]; other site 399739011838 putative Zn2+ binding site [ion binding]; other site 399739011839 AsnC family; Region: AsnC_trans_reg; pfam01037 399739011840 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 399739011841 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 399739011842 heme-binding site [chemical binding]; other site 399739011843 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 399739011844 pseudouridine synthase; Region: TIGR00093 399739011845 active site 399739011846 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 399739011847 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 399739011848 putative NAD(P) binding site [chemical binding]; other site 399739011849 putative substrate binding site [chemical binding]; other site 399739011850 catalytic Zn binding site [ion binding]; other site 399739011851 structural Zn binding site [ion binding]; other site 399739011852 dimer interface [polypeptide binding]; other site 399739011853 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739011854 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739011855 Coenzyme A binding pocket [chemical binding]; other site 399739011856 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 399739011857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739011858 DNA-binding site [nucleotide binding]; DNA binding site 399739011859 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 399739011860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739011861 homodimer interface [polypeptide binding]; other site 399739011862 catalytic residue [active] 399739011863 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 399739011864 tetramer interface [polypeptide binding]; other site 399739011865 hypothetical protein; Provisional; Region: PRK06815 399739011866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739011867 catalytic residue [active] 399739011868 AMP nucleosidase; Provisional; Region: PRK08292 399739011869 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 399739011870 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 399739011871 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 399739011872 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 399739011873 active site 399739011874 zinc binding site [ion binding]; other site 399739011875 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 399739011876 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 399739011877 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 399739011878 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 399739011879 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 399739011880 CT1975-like protein; Region: Cas_CT1975; pfam09344 399739011881 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 399739011882 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 399739011883 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 399739011884 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 399739011885 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 399739011886 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 399739011887 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 399739011888 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739011889 active site 399739011890 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739011891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739011892 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739011893 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399739011894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739011895 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 399739011896 dimer interface [polypeptide binding]; other site 399739011897 phosphorylation site [posttranslational modification] 399739011898 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 399739011899 ATP binding site [chemical binding]; other site 399739011900 Mg2+ binding site [ion binding]; other site 399739011901 G-X-G motif; other site 399739011902 Response regulator receiver domain; Region: Response_reg; pfam00072 399739011903 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 399739011904 active site 399739011905 phosphorylation site [posttranslational modification] 399739011906 intermolecular recognition site; other site 399739011907 dimerization interface [polypeptide binding]; other site 399739011908 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 399739011909 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 399739011910 intersubunit interface [polypeptide binding]; other site 399739011911 FecCD transport family; Region: FecCD; pfam01032 399739011912 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 399739011913 ABC-ATPase subunit interface; other site 399739011914 dimer interface [polypeptide binding]; other site 399739011915 putative PBP binding regions; other site 399739011916 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 399739011917 dimer interface [polypeptide binding]; other site 399739011918 putative PBP binding regions; other site 399739011919 ABC-ATPase subunit interface; other site 399739011920 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 399739011921 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399739011922 Walker A/P-loop; other site 399739011923 ATP binding site [chemical binding]; other site 399739011924 Q-loop/lid; other site 399739011925 ABC transporter signature motif; other site 399739011926 Walker B; other site 399739011927 D-loop; other site 399739011928 H-loop/switch region; other site 399739011929 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 399739011930 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 399739011931 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 399739011932 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739011933 putative substrate translocation pore; other site 399739011934 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 399739011935 dimer interface [polypeptide binding]; other site 399739011936 substrate binding site [chemical binding]; other site 399739011937 ATP binding site [chemical binding]; other site 399739011938 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 399739011939 thiamine phosphate binding site [chemical binding]; other site 399739011940 active site 399739011941 pyrophosphate binding site [ion binding]; other site 399739011942 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 399739011943 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 399739011944 inhibitor-cofactor binding pocket; inhibition site 399739011945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739011946 catalytic residue [active] 399739011947 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399739011948 Sel1-like repeats; Region: SEL1; smart00671 399739011949 Sel1-like repeats; Region: SEL1; smart00671 399739011950 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 399739011951 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 399739011952 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 399739011953 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 399739011954 FeS/SAM binding site; other site 399739011955 TRAM domain; Region: TRAM; pfam01938 399739011956 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 399739011957 PhoH-like protein; Region: PhoH; pfam02562 399739011958 metal-binding heat shock protein; Provisional; Region: PRK00016 399739011959 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 399739011960 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 399739011961 Transporter associated domain; Region: CorC_HlyC; smart01091 399739011962 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 399739011963 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 399739011964 putative active site [active] 399739011965 catalytic triad [active] 399739011966 putative dimer interface [polypeptide binding]; other site 399739011967 Uncharacterized conserved protein [Function unknown]; Region: COG1434 399739011968 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 399739011969 putative active site [active] 399739011970 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 399739011971 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 399739011972 HIGH motif; other site 399739011973 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 399739011974 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739011975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399739011976 active site 399739011977 KMSKS motif; other site 399739011978 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 399739011979 tRNA binding surface [nucleotide binding]; other site 399739011980 Lipopolysaccharide-assembly; Region: LptE; cl01125 399739011981 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 399739011982 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 399739011983 Domain of unknown function; Region: DUF331; cl01149 399739011984 Transglycosylase SLT domain; Region: SLT_2; pfam13406 399739011985 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 399739011986 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739011987 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399739011988 lipoyl synthase; Provisional; Region: PRK05481 399739011989 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 399739011990 FeS/SAM binding site; other site 399739011991 lipoate-protein ligase B; Provisional; Region: PRK14342 399739011992 hypothetical protein; Provisional; Region: PRK00341 399739011993 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 399739011994 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 399739011995 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 399739011996 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 399739011997 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 399739011998 Sporulation related domain; Region: SPOR; pfam05036 399739011999 Transglycosylase SLT domain; Region: SLT_2; pfam13406 399739012000 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 399739012001 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399739012002 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 399739012003 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 399739012004 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 399739012005 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 399739012006 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 399739012007 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 399739012008 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 399739012009 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 399739012010 active site 399739012011 (T/H)XGH motif; other site 399739012012 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 399739012013 putative catalytic cysteine [active] 399739012014 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739012015 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 399739012016 Leucine carboxyl methyltransferase; Region: LCM; cl01306 399739012017 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 399739012018 active site 399739012019 DNA binding site [nucleotide binding] 399739012020 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 399739012021 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 399739012022 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 399739012023 active site 399739012024 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 399739012025 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 399739012026 LrgA family; Region: LrgA; cl00608 399739012027 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 399739012028 putative active site [active] 399739012029 putative catalytic site [active] 399739012030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 399739012031 MORN repeat; Region: MORN; pfam02493 399739012032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 399739012033 Peptidase C13 family; Region: Peptidase_C13; cl02159 399739012034 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 399739012035 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 399739012036 NAD binding site [chemical binding]; other site 399739012037 active site 399739012038 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 399739012039 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399739012040 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 399739012041 S-adenosylmethionine binding site [chemical binding]; other site 399739012042 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 399739012043 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 399739012044 active site 399739012045 phosphorylation site [posttranslational modification] 399739012046 intermolecular recognition site; other site 399739012047 dimerization interface [polypeptide binding]; other site 399739012048 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 399739012049 DNA binding residues [nucleotide binding] 399739012050 dimerization interface [polypeptide binding]; other site 399739012051 PAS domain S-box; Region: sensory_box; TIGR00229 399739012052 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 399739012053 putative active site [active] 399739012054 heme pocket [chemical binding]; other site 399739012055 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 399739012056 dimer interface [polypeptide binding]; other site 399739012057 phosphorylation site [posttranslational modification] 399739012058 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 399739012059 ATP binding site [chemical binding]; other site 399739012060 G-X-G motif; other site 399739012061 acyl-CoA synthetase; Validated; Region: PRK08162 399739012062 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 399739012063 acyl-activating enzyme (AAE) consensus motif; other site 399739012064 putative active site [active] 399739012065 AMP binding site [chemical binding]; other site 399739012066 putative CoA binding site [chemical binding]; other site 399739012067 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739012068 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739012069 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739012070 active site 399739012071 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739012072 putative acyltransferase; Provisional; Region: PRK05790 399739012073 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 399739012074 dimer interface [polypeptide binding]; other site 399739012075 active site 399739012076 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399739012077 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 399739012078 putative deacylase active site [active] 399739012079 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 399739012080 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 399739012081 aromatic acid decarboxylase; Validated; Region: PRK05920 399739012082 Flavoprotein; Region: Flavoprotein; pfam02441 399739012083 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 399739012084 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399739012085 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399739012086 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399739012087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739012088 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399739012089 Coenzyme A binding pocket [chemical binding]; other site 399739012090 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 399739012091 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 399739012092 dimer interface [polypeptide binding]; other site 399739012093 substrate binding site [chemical binding]; other site 399739012094 metal binding sites [ion binding]; metal-binding site 399739012095 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 399739012096 putative ligand binding site [chemical binding]; other site 399739012097 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 399739012098 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 399739012099 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 399739012100 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739012101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739012102 DNA-binding site [nucleotide binding]; DNA binding site 399739012103 FCD domain; Region: FCD; pfam07729 399739012104 cytosine deaminase; Provisional; Region: PRK05985 399739012105 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 399739012106 active site 399739012107 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 399739012108 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 399739012109 TM-ABC transporter signature motif; other site 399739012110 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 399739012111 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 399739012112 Walker A/P-loop; other site 399739012113 ATP binding site [chemical binding]; other site 399739012114 Q-loop/lid; other site 399739012115 ABC transporter signature motif; other site 399739012116 Walker B; other site 399739012117 D-loop; other site 399739012118 H-loop/switch region; other site 399739012119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 399739012120 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 399739012121 Walker A/P-loop; other site 399739012122 ATP binding site [chemical binding]; other site 399739012123 Q-loop/lid; other site 399739012124 ABC transporter signature motif; other site 399739012125 Walker B; other site 399739012126 D-loop; other site 399739012127 H-loop/switch region; other site 399739012128 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 399739012129 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 399739012130 TM-ABC transporter signature motif; other site 399739012131 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 399739012132 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 399739012133 putative ligand binding site [chemical binding]; other site 399739012134 SnoaL-like domain; Region: SnoaL_2; pfam12680 399739012135 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399739012136 hypothetical protein; Provisional; Region: PRK10621 399739012137 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 399739012138 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 399739012139 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 399739012140 substrate binding pocket [chemical binding]; other site 399739012141 chain length determination region; other site 399739012142 substrate-Mg2+ binding site; other site 399739012143 catalytic residues [active] 399739012144 aspartate-rich region 1; other site 399739012145 active site lid residues [active] 399739012146 aspartate-rich region 2; other site 399739012147 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 399739012148 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739012149 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399739012150 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399739012151 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 399739012152 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 399739012153 carboxyltransferase (CT) interaction site; other site 399739012154 biotinylation site [posttranslational modification]; other site 399739012155 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 399739012156 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 399739012157 trimer interface [polypeptide binding]; other site 399739012158 oxyanion hole (OAH) forming residues; other site 399739012159 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399739012160 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739012161 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 399739012162 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 399739012163 TPP-binding site; other site 399739012164 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 399739012165 PYR/PP interface [polypeptide binding]; other site 399739012166 dimer interface [polypeptide binding]; other site 399739012167 TPP binding site [chemical binding]; other site 399739012168 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399739012169 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 399739012170 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 399739012171 N-terminal plug; other site 399739012172 ligand-binding site [chemical binding]; other site 399739012173 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 399739012174 cobalamin binding residues [chemical binding]; other site 399739012175 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 399739012176 putative BtuC binding residues; other site 399739012177 dimer interface [polypeptide binding]; other site 399739012178 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 399739012179 dimerization interface [polypeptide binding]; other site 399739012180 active site 399739012181 Predicted aspartyl protease [General function prediction only]; Region: COG3577 399739012182 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 399739012183 catalytic motif [active] 399739012184 Catalytic residue [active] 399739012185 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739012186 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 399739012187 membrane-bound complex binding site; other site 399739012188 hinge residues; other site 399739012189 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 399739012190 tetramer interfaces [polypeptide binding]; other site 399739012191 binuclear metal-binding site [ion binding]; other site 399739012192 thiamine monophosphate kinase; Provisional; Region: PRK05731 399739012193 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 399739012194 ATP binding site [chemical binding]; other site 399739012195 dimerization interface [polypeptide binding]; other site 399739012196 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 399739012197 putative RNA binding site [nucleotide binding]; other site 399739012198 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 399739012199 homopentamer interface [polypeptide binding]; other site 399739012200 active site 399739012201 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 399739012202 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 399739012203 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 399739012204 dimerization interface [polypeptide binding]; other site 399739012205 active site 399739012206 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 399739012207 Lumazine binding domain; Region: Lum_binding; pfam00677 399739012208 Lumazine binding domain; Region: Lum_binding; pfam00677 399739012209 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 399739012210 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 399739012211 catalytic motif [active] 399739012212 Zn binding site [ion binding]; other site 399739012213 RibD C-terminal domain; Region: RibD_C; cl17279 399739012214 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 399739012215 ATP cone domain; Region: ATP-cone; pfam03477 399739012216 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 399739012217 Predicted methyltransferase [General function prediction only]; Region: COG3897 399739012218 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 399739012219 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 399739012220 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 399739012221 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 399739012222 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399739012223 Walker A/P-loop; other site 399739012224 ATP binding site [chemical binding]; other site 399739012225 Q-loop/lid; other site 399739012226 ABC transporter signature motif; other site 399739012227 Walker B; other site 399739012228 D-loop; other site 399739012229 H-loop/switch region; other site 399739012230 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399739012231 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 399739012232 FtsX-like permease family; Region: FtsX; pfam02687 399739012233 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 399739012234 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 399739012235 binding surface 399739012236 TPR motif; other site 399739012237 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399739012238 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399739012239 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 399739012240 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 399739012241 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 399739012242 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 399739012243 OmpW family; Region: OmpW; cl17427 399739012244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739012245 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739012246 NAD(P) binding site [chemical binding]; other site 399739012247 active site 399739012248 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 399739012249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739012250 NAD(P) binding site [chemical binding]; other site 399739012251 active site 399739012252 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 399739012253 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 399739012254 dimer interface [polypeptide binding]; other site 399739012255 ssDNA binding site [nucleotide binding]; other site 399739012256 tetramer (dimer of dimers) interface [polypeptide binding]; other site 399739012257 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 399739012258 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399739012259 putative substrate translocation pore; other site 399739012260 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 399739012261 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 399739012262 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 399739012263 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 399739012264 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 399739012265 active site 399739012266 Zn binding site [ion binding]; other site 399739012267 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 399739012268 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 399739012269 heme binding site [chemical binding]; other site 399739012270 ferroxidase pore; other site 399739012271 ferroxidase diiron center [ion binding]; other site 399739012272 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 399739012273 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 399739012274 dimer interface [polypeptide binding]; other site 399739012275 active site 399739012276 heme binding site [chemical binding]; other site 399739012277 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 399739012278 heme binding site [chemical binding]; other site 399739012279 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 399739012280 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 399739012281 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 399739012282 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 399739012283 alphaNTD homodimer interface [polypeptide binding]; other site 399739012284 alphaNTD - beta interaction site [polypeptide binding]; other site 399739012285 alphaNTD - beta' interaction site [polypeptide binding]; other site 399739012286 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 399739012287 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 399739012288 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 399739012289 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 399739012290 RNA binding surface [nucleotide binding]; other site 399739012291 30S ribosomal protein S11; Validated; Region: PRK05309 399739012292 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 399739012293 30S ribosomal protein S13; Region: bact_S13; TIGR03631 399739012294 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 399739012295 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 399739012296 SecY translocase; Region: SecY; pfam00344 399739012297 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 399739012298 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 399739012299 23S rRNA binding site [nucleotide binding]; other site 399739012300 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 399739012301 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 399739012302 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 399739012303 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 399739012304 5S rRNA interface [nucleotide binding]; other site 399739012305 23S rRNA interface [nucleotide binding]; other site 399739012306 L5 interface [polypeptide binding]; other site 399739012307 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 399739012308 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 399739012309 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 399739012310 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 399739012311 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 399739012312 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 399739012313 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 399739012314 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 399739012315 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 399739012316 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 399739012317 RNA binding site [nucleotide binding]; other site 399739012318 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 399739012319 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 399739012320 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 399739012321 23S rRNA interface [nucleotide binding]; other site 399739012322 putative translocon interaction site; other site 399739012323 signal recognition particle (SRP54) interaction site; other site 399739012324 L23 interface [polypeptide binding]; other site 399739012325 trigger factor interaction site; other site 399739012326 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 399739012327 23S rRNA interface [nucleotide binding]; other site 399739012328 5S rRNA interface [nucleotide binding]; other site 399739012329 putative antibiotic binding site [chemical binding]; other site 399739012330 L25 interface [polypeptide binding]; other site 399739012331 L27 interface [polypeptide binding]; other site 399739012332 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 399739012333 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 399739012334 G-X-X-G motif; other site 399739012335 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 399739012336 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 399739012337 protein-rRNA interface [nucleotide binding]; other site 399739012338 putative translocon binding site; other site 399739012339 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 399739012340 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 399739012341 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 399739012342 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 399739012343 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 399739012344 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 399739012345 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 399739012346 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 399739012347 elongation factor Tu; Reviewed; Region: PRK00049 399739012348 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 399739012349 G1 box; other site 399739012350 GEF interaction site [polypeptide binding]; other site 399739012351 GTP/Mg2+ binding site [chemical binding]; other site 399739012352 Switch I region; other site 399739012353 G2 box; other site 399739012354 G3 box; other site 399739012355 Switch II region; other site 399739012356 G4 box; other site 399739012357 G5 box; other site 399739012358 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 399739012359 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 399739012360 Antibiotic Binding Site [chemical binding]; other site 399739012361 elongation factor G; Reviewed; Region: PRK00007 399739012362 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 399739012363 G1 box; other site 399739012364 putative GEF interaction site [polypeptide binding]; other site 399739012365 GTP/Mg2+ binding site [chemical binding]; other site 399739012366 Switch I region; other site 399739012367 G2 box; other site 399739012368 G3 box; other site 399739012369 Switch II region; other site 399739012370 G4 box; other site 399739012371 G5 box; other site 399739012372 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 399739012373 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 399739012374 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 399739012375 30S ribosomal protein S7; Validated; Region: PRK05302 399739012376 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 399739012377 S17 interaction site [polypeptide binding]; other site 399739012378 S8 interaction site; other site 399739012379 16S rRNA interaction site [nucleotide binding]; other site 399739012380 streptomycin interaction site [chemical binding]; other site 399739012381 23S rRNA interaction site [nucleotide binding]; other site 399739012382 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 399739012383 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 399739012384 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 399739012385 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 399739012386 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 399739012387 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 399739012388 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 399739012389 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 399739012390 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 399739012391 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 399739012392 DNA binding site [nucleotide binding] 399739012393 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 399739012394 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 399739012395 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 399739012396 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 399739012397 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 399739012398 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 399739012399 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 399739012400 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 399739012401 RPB3 interaction site [polypeptide binding]; other site 399739012402 RPB1 interaction site [polypeptide binding]; other site 399739012403 RPB11 interaction site [polypeptide binding]; other site 399739012404 RPB10 interaction site [polypeptide binding]; other site 399739012405 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 399739012406 core dimer interface [polypeptide binding]; other site 399739012407 peripheral dimer interface [polypeptide binding]; other site 399739012408 L10 interface [polypeptide binding]; other site 399739012409 L11 interface [polypeptide binding]; other site 399739012410 putative EF-Tu interaction site [polypeptide binding]; other site 399739012411 putative EF-G interaction site [polypeptide binding]; other site 399739012412 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 399739012413 23S rRNA interface [nucleotide binding]; other site 399739012414 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 399739012415 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 399739012416 mRNA/rRNA interface [nucleotide binding]; other site 399739012417 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 399739012418 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 399739012419 23S rRNA interface [nucleotide binding]; other site 399739012420 L7/L12 interface [polypeptide binding]; other site 399739012421 putative thiostrepton binding site; other site 399739012422 L25 interface [polypeptide binding]; other site 399739012423 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 399739012424 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 399739012425 putative homodimer interface [polypeptide binding]; other site 399739012426 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 399739012427 heterodimer interface [polypeptide binding]; other site 399739012428 homodimer interface [polypeptide binding]; other site 399739012429 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 399739012430 elongation factor Tu; Reviewed; Region: PRK00049 399739012431 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 399739012432 G1 box; other site 399739012433 GEF interaction site [polypeptide binding]; other site 399739012434 GTP/Mg2+ binding site [chemical binding]; other site 399739012435 Switch I region; other site 399739012436 G2 box; other site 399739012437 G3 box; other site 399739012438 Switch II region; other site 399739012439 G4 box; other site 399739012440 G5 box; other site 399739012441 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 399739012442 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 399739012443 Antibiotic Binding Site [chemical binding]; other site 399739012444 Sporulation related domain; Region: SPOR; cl10051 399739012445 pantothenate kinase; Reviewed; Region: PRK13322 399739012446 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 399739012447 Biotin operon repressor [Transcription]; Region: BirA; COG1654 399739012448 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 399739012449 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 399739012450 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 399739012451 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 399739012452 active site 399739012453 HIGH motif; other site 399739012454 dimer interface [polypeptide binding]; other site 399739012455 KMSKS motif; other site 399739012456 putative peptidase; Provisional; Region: PRK11649 399739012457 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 399739012458 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739012459 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 399739012460 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 399739012461 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 399739012462 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 399739012463 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 399739012464 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 399739012465 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 399739012466 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 399739012467 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 399739012468 FMN binding site [chemical binding]; other site 399739012469 substrate binding site [chemical binding]; other site 399739012470 putative catalytic residue [active] 399739012471 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 399739012472 dimer interface [polypeptide binding]; other site 399739012473 active site 399739012474 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739012475 substrate binding site [chemical binding]; other site 399739012476 catalytic residue [active] 399739012477 Protein of unknown function (DUF805); Region: DUF805; pfam05656 399739012478 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 399739012479 classical (c) SDRs; Region: SDR_c; cd05233 399739012480 NAD(P) binding site [chemical binding]; other site 399739012481 active site 399739012482 Ycf46; Provisional; Region: ycf46; CHL00195 399739012483 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 399739012484 Walker A motif; other site 399739012485 ATP binding site [chemical binding]; other site 399739012486 Walker B motif; other site 399739012487 arginine finger; other site 399739012488 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 399739012489 Uncharacterized conserved protein [Function unknown]; Region: COG1262 399739012490 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 399739012491 diiron binding motif [ion binding]; other site 399739012492 OsmC-like protein; Region: OsmC; cl00767 399739012493 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 399739012494 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 399739012495 ligand binding site [chemical binding]; other site 399739012496 flexible hinge region; other site 399739012497 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 399739012498 putative switch regulator; other site 399739012499 non-specific DNA interactions [nucleotide binding]; other site 399739012500 DNA binding site [nucleotide binding] 399739012501 sequence specific DNA binding site [nucleotide binding]; other site 399739012502 putative cAMP binding site [chemical binding]; other site 399739012503 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 399739012504 active site 399739012505 ribulose/triose binding site [chemical binding]; other site 399739012506 phosphate binding site [ion binding]; other site 399739012507 substrate (anthranilate) binding pocket [chemical binding]; other site 399739012508 product (indole) binding pocket [chemical binding]; other site 399739012509 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 399739012510 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 399739012511 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 399739012512 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 399739012513 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 399739012514 glutamine binding [chemical binding]; other site 399739012515 catalytic triad [active] 399739012516 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 399739012517 virion protein; Provisional; Region: V; PHA02564 399739012518 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 399739012519 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 399739012520 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 399739012521 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 399739012522 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 399739012523 Phage capsid family; Region: Phage_capsid; pfam05065 399739012524 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 399739012525 oligomer interface [polypeptide binding]; other site 399739012526 active site residues [active] 399739012527 Phage portal protein; Region: Phage_portal; pfam04860 399739012528 Phage-related protein [Function unknown]; Region: COG4695 399739012529 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 399739012530 Phage terminase, small subunit; Region: Terminase_4; cl01525 399739012531 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 399739012532 active site 399739012533 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 399739012534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 399739012535 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 399739012536 active site 399739012537 metal binding site [ion binding]; metal-binding site 399739012538 interdomain interaction site; other site 399739012539 Virulence-associated protein E; Region: VirE; pfam05272 399739012540 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 399739012541 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 399739012542 non-specific DNA binding site [nucleotide binding]; other site 399739012543 salt bridge; other site 399739012544 sequence-specific DNA binding site [nucleotide binding]; other site 399739012545 Predicted transcriptional regulator [Transcription]; Region: COG2932 399739012546 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 399739012547 non-specific DNA binding site [nucleotide binding]; other site 399739012548 salt bridge; other site 399739012549 sequence-specific DNA binding site [nucleotide binding]; other site 399739012550 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 399739012551 Catalytic site [active] 399739012552 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 399739012553 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 399739012554 HD domain; Region: HD_3; cl17350 399739012555 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 399739012556 integrase; Provisional; Region: PRK09692 399739012557 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 399739012558 active site 399739012559 Int/Topo IB signature motif; other site 399739012560 anthranilate synthase component I; Provisional; Region: PRK13565 399739012561 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 399739012562 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 399739012563 phosphoglycolate phosphatase; Provisional; Region: PRK13222 399739012564 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 399739012565 motif II; other site 399739012566 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 399739012567 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 399739012568 substrate binding site [chemical binding]; other site 399739012569 hexamer interface [polypeptide binding]; other site 399739012570 metal binding site [ion binding]; metal-binding site 399739012571 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739012572 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 399739012573 dimer interface [polypeptide binding]; other site 399739012574 conserved gate region; other site 399739012575 putative PBP binding loops; other site 399739012576 ABC-ATPase subunit interface; other site 399739012577 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 399739012578 dimer interface [polypeptide binding]; other site 399739012579 conserved gate region; other site 399739012580 putative PBP binding loops; other site 399739012581 ABC-ATPase subunit interface; other site 399739012582 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 399739012583 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739012584 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399739012585 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 399739012586 Walker A/P-loop; other site 399739012587 ATP binding site [chemical binding]; other site 399739012588 Q-loop/lid; other site 399739012589 ABC transporter signature motif; other site 399739012590 Walker B; other site 399739012591 D-loop; other site 399739012592 H-loop/switch region; other site 399739012593 TOBE domain; Region: TOBE_2; pfam08402 399739012594 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739012595 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 399739012596 active site 399739012597 phosphorylation site [posttranslational modification] 399739012598 intermolecular recognition site; other site 399739012599 dimerization interface [polypeptide binding]; other site 399739012600 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 399739012601 DNA binding residues [nucleotide binding] 399739012602 dimerization interface [polypeptide binding]; other site 399739012603 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 399739012604 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739012605 substrate binding pocket [chemical binding]; other site 399739012606 membrane-bound complex binding site; other site 399739012607 hinge residues; other site 399739012608 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 399739012609 PAS domain; Region: PAS_9; pfam13426 399739012610 putative active site [active] 399739012611 heme pocket [chemical binding]; other site 399739012612 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 399739012613 PAS fold; Region: PAS_3; pfam08447 399739012614 putative active site [active] 399739012615 heme pocket [chemical binding]; other site 399739012616 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399739012617 Histidine kinase; Region: HisKA_3; pfam07730 399739012618 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 399739012619 ATP binding site [chemical binding]; other site 399739012620 Mg2+ binding site [ion binding]; other site 399739012621 G-X-G motif; other site 399739012622 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 399739012623 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 399739012624 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 399739012625 putative metal binding site [ion binding]; other site 399739012626 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 399739012627 HSP70 interaction site [polypeptide binding]; other site 399739012628 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 399739012629 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 399739012630 Substrate binding site; other site 399739012631 metal-binding site 399739012632 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 399739012633 Phosphotransferase enzyme family; Region: APH; pfam01636 399739012634 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 399739012635 OstA-like protein; Region: OstA; cl00844 399739012636 Organic solvent tolerance protein; Region: OstA_C; pfam04453 399739012637 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 399739012638 SurA N-terminal domain; Region: SurA_N; pfam09312 399739012639 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399739012640 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399739012641 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 399739012642 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 399739012643 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 399739012644 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 399739012645 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 399739012646 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 399739012647 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 399739012648 active site 399739012649 metal binding site [ion binding]; metal-binding site 399739012650 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 399739012651 active site residue [active] 399739012652 PrkA family serine protein kinase; Provisional; Region: PRK15455 399739012653 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 399739012654 hypothetical protein; Provisional; Region: PRK05325 399739012655 SpoVR family protein; Provisional; Region: PRK11767 399739012656 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 399739012657 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399739012658 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 399739012659 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 399739012660 active site 399739012661 NTP binding site [chemical binding]; other site 399739012662 metal binding triad [ion binding]; metal-binding site 399739012663 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 399739012664 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739012665 Zn2+ binding site [ion binding]; other site 399739012666 Mg2+ binding site [ion binding]; other site 399739012667 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 399739012668 catalytic center binding site [active] 399739012669 ATP binding site [chemical binding]; other site 399739012670 Dihydroneopterin aldolase; Region: FolB; smart00905 399739012671 active site 399739012672 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 399739012673 UGMP family protein; Validated; Region: PRK09604 399739012674 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 399739012675 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 399739012676 DNA primase, catalytic core; Region: dnaG; TIGR01391 399739012677 CHC2 zinc finger; Region: zf-CHC2; pfam01807 399739012678 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 399739012679 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 399739012680 active site 399739012681 metal binding site [ion binding]; metal-binding site 399739012682 interdomain interaction site; other site 399739012683 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 399739012684 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 399739012685 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 399739012686 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 399739012687 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 399739012688 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 399739012689 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739012690 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399739012691 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 399739012692 DNA binding residues [nucleotide binding] 399739012693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739012694 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 399739012695 substrate binding pocket [chemical binding]; other site 399739012696 membrane-bound complex binding site; other site 399739012697 hinge residues; other site 399739012698 PAS domain S-box; Region: sensory_box; TIGR00229 399739012699 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 399739012700 putative active site [active] 399739012701 heme pocket [chemical binding]; other site 399739012702 PAS domain S-box; Region: sensory_box; TIGR00229 399739012703 PAS domain S-box; Region: sensory_box; TIGR00229 399739012704 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 399739012705 putative active site [active] 399739012706 heme pocket [chemical binding]; other site 399739012707 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 399739012708 PAS domain; Region: PAS_9; pfam13426 399739012709 putative active site [active] 399739012710 heme pocket [chemical binding]; other site 399739012711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739012712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739012713 metal binding site [ion binding]; metal-binding site 399739012714 active site 399739012715 I-site; other site 399739012716 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 399739012717 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399739012718 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 399739012719 non-specific DNA binding site [nucleotide binding]; other site 399739012720 salt bridge; other site 399739012721 sequence-specific DNA binding site [nucleotide binding]; other site 399739012722 HipA N-terminal domain; Region: Couple_hipA; pfam13657 399739012723 HipA-like N-terminal domain; Region: HipA_N; pfam07805 399739012724 HipA-like C-terminal domain; Region: HipA_C; pfam07804 399739012725 Nuclease-related domain; Region: NERD; pfam08378 399739012726 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399739012727 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 399739012728 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 399739012729 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 399739012730 cofactor binding site; other site 399739012731 DNA binding site [nucleotide binding] 399739012732 substrate interaction site [chemical binding]; other site 399739012733 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 399739012734 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 399739012735 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 399739012736 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 399739012737 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 399739012738 S-adenosylmethionine binding site [chemical binding]; other site 399739012739 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 399739012740 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 399739012741 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739012742 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 399739012743 active site 399739012744 phosphorylation site [posttranslational modification] 399739012745 intermolecular recognition site; other site 399739012746 dimerization interface [polypeptide binding]; other site 399739012747 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 399739012748 DNA binding residues [nucleotide binding] 399739012749 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 399739012750 dimer interface [polypeptide binding]; other site 399739012751 phosphorylation site [posttranslational modification] 399739012752 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 399739012753 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 399739012754 ATP binding site [chemical binding]; other site 399739012755 Mg2+ binding site [ion binding]; other site 399739012756 G-X-G motif; other site 399739012757 Response regulator receiver domain; Region: Response_reg; pfam00072 399739012758 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 399739012759 active site 399739012760 phosphorylation site [posttranslational modification] 399739012761 intermolecular recognition site; other site 399739012762 dimerization interface [polypeptide binding]; other site 399739012763 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739012764 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739012765 metal binding site [ion binding]; metal-binding site 399739012766 active site 399739012767 I-site; other site 399739012768 DctM-like transporters; Region: DctM; pfam06808 399739012769 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 399739012770 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 399739012771 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739012772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739012773 PAS fold; Region: PAS_4; pfam08448 399739012774 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739012775 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 399739012776 Walker A motif; other site 399739012777 ATP binding site [chemical binding]; other site 399739012778 Walker B motif; other site 399739012779 arginine finger; other site 399739012780 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 399739012781 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 399739012782 Coenzyme A transferase; Region: CoA_trans; smart00882 399739012783 Coenzyme A transferase; Region: CoA_trans; cl17247 399739012784 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 399739012785 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 399739012786 putative molybdopterin cofactor binding site [chemical binding]; other site 399739012787 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 399739012788 putative molybdopterin cofactor binding site; other site 399739012789 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 399739012790 agmatinase; Region: agmatinase; TIGR01230 399739012791 oligomer interface [polypeptide binding]; other site 399739012792 putative active site [active] 399739012793 Mn binding site [ion binding]; other site 399739012794 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399739012795 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739012796 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739012797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739012798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 399739012799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739012800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739012801 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 399739012802 dimerization interface [polypeptide binding]; other site 399739012803 Predicted flavoprotein [General function prediction only]; Region: COG0431 399739012804 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739012805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739012806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739012807 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 399739012808 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 399739012809 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399739012810 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399739012811 TolR protein; Region: tolR; TIGR02801 399739012812 TolQ protein; Region: tolQ; TIGR02796 399739012813 Phytase; Region: Phytase; cl17685 399739012814 Phytase; Region: Phytase; cl17685 399739012815 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399739012816 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 399739012817 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 399739012818 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739012819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739012820 metal binding site [ion binding]; metal-binding site 399739012821 active site 399739012822 I-site; other site 399739012823 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739012824 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739012825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739012826 DNA-specific endonuclease I; Provisional; Region: PRK15137 399739012827 Endonuclease I; Region: Endonuclease_1; cl01003 399739012828 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 399739012829 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739012830 DNA-binding site [nucleotide binding]; DNA binding site 399739012831 UTRA domain; Region: UTRA; pfam07702 399739012832 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 399739012833 active sites [active] 399739012834 tetramer interface [polypeptide binding]; other site 399739012835 urocanate hydratase; Provisional; Region: PRK05414 399739012836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 399739012837 Nucleoside recognition; Region: Gate; pfam07670 399739012838 formimidoylglutamase; Provisional; Region: PRK13775 399739012839 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 399739012840 putative active site [active] 399739012841 putative metal binding site [ion binding]; other site 399739012842 imidazolonepropionase; Validated; Region: PRK09356 399739012843 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 399739012844 active site 399739012845 HutD; Region: HutD; pfam05962 399739012846 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 399739012847 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 399739012848 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 399739012849 PBP superfamily domain; Region: PBP_like_2; cl17296 399739012850 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 399739012851 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739012852 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739012853 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739012854 active site 399739012855 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739012856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739012857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739012858 metal binding site [ion binding]; metal-binding site 399739012859 active site 399739012860 I-site; other site 399739012861 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399739012862 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399739012863 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399739012864 active site 399739012865 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399739012866 SprA-related family; Region: SprA-related; pfam12118 399739012867 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 399739012868 AAA domain; Region: AAA_26; pfam13500 399739012869 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 399739012870 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 399739012871 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 399739012872 S-adenosylmethionine binding site [chemical binding]; other site 399739012873 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 399739012874 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 399739012875 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 399739012876 substrate-cofactor binding pocket; other site 399739012877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739012878 catalytic residue [active] 399739012879 biotin synthase; Provisional; Region: PRK15108 399739012880 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 399739012881 FeS/SAM binding site; other site 399739012882 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 399739012883 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 399739012884 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 399739012885 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 399739012886 TOBE domain; Region: TOBE; cl01440 399739012887 TOBE domain; Region: TOBE; cl01440 399739012888 serine/threonine protein kinase; Provisional; Region: PRK11768 399739012889 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 399739012890 Predicted permeases [General function prediction only]; Region: RarD; COG2962 399739012891 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 399739012892 ACT domain; Region: ACT_6; pfam13740 399739012893 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 399739012894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399739012895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739012896 Coenzyme A binding pocket [chemical binding]; other site 399739012897 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 399739012898 active site 399739012899 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 399739012900 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 399739012901 ligand binding site [chemical binding]; other site 399739012902 flexible hinge region; other site 399739012903 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 399739012904 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399739012905 metal binding triad; other site 399739012906 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399739012907 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 399739012908 active site 399739012909 catalytic site [active] 399739012910 substrate binding site [chemical binding]; other site 399739012911 putative protease; Provisional; Region: PRK15452 399739012912 Peptidase family U32; Region: Peptidase_U32; pfam01136 399739012913 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 399739012914 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 399739012915 Na binding site [ion binding]; other site 399739012916 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 399739012917 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399739012918 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 399739012919 N-terminal plug; other site 399739012920 ligand-binding site [chemical binding]; other site 399739012921 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 399739012922 carbohydrate binding site [chemical binding]; other site 399739012923 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 399739012924 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 399739012925 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 399739012926 Ca binding site [ion binding]; other site 399739012927 active site 399739012928 catalytic site [active] 399739012929 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 399739012930 inner membrane protein; Provisional; Region: PRK11715 399739012931 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 399739012932 Chitin binding domain; Region: Chitin_bind_3; pfam03067 399739012933 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 399739012934 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 399739012935 active site 399739012936 catalytic residues [active] 399739012937 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399739012938 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 399739012939 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 399739012940 DEAD_2; Region: DEAD_2; pfam06733 399739012941 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 399739012942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 399739012943 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399739012944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739012945 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399739012946 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399739012947 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399739012948 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399739012949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399739012950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 399739012951 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 399739012952 sensory histidine kinase CreC; Provisional; Region: PRK11100 399739012953 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 399739012954 dimerization interface [polypeptide binding]; other site 399739012955 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 399739012956 dimer interface [polypeptide binding]; other site 399739012957 phosphorylation site [posttranslational modification] 399739012958 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 399739012959 ATP binding site [chemical binding]; other site 399739012960 G-X-G motif; other site 399739012961 DNA-binding response regulator CreB; Provisional; Region: PRK11083 399739012962 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 399739012963 active site 399739012964 phosphorylation site [posttranslational modification] 399739012965 intermolecular recognition site; other site 399739012966 dimerization interface [polypeptide binding]; other site 399739012967 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 399739012968 DNA binding site [nucleotide binding] 399739012969 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 399739012970 FOG: CBS domain [General function prediction only]; Region: COG0517 399739012971 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739012972 dimer interface [polypeptide binding]; other site 399739012973 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 399739012974 putative CheW interface [polypeptide binding]; other site 399739012975 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 399739012976 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 399739012977 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 399739012978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739012979 Zn2+ binding site [ion binding]; other site 399739012980 Mg2+ binding site [ion binding]; other site 399739012981 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739012982 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 399739012983 putative acyl-acceptor binding pocket; other site 399739012984 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 399739012985 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 399739012986 NAD binding site [chemical binding]; other site 399739012987 catalytic Zn binding site [ion binding]; other site 399739012988 structural Zn binding site [ion binding]; other site 399739012989 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 399739012990 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 399739012991 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 399739012992 putative active site [active] 399739012993 putative substrate binding site [chemical binding]; other site 399739012994 putative cosubstrate binding site; other site 399739012995 catalytic site [active] 399739012996 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 399739012997 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 399739012998 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 399739012999 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 399739013000 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399739013001 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 399739013002 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 399739013003 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739013004 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 399739013005 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 399739013006 dimer interface [polypeptide binding]; other site 399739013007 active site 399739013008 glycine-pyridoxal phosphate binding site [chemical binding]; other site 399739013009 folate binding site [chemical binding]; other site 399739013010 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 399739013011 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 399739013012 tetramer interface [polypeptide binding]; other site 399739013013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739013014 catalytic residue [active] 399739013015 Autotransporter beta-domain; Region: Autotransporter; pfam03797 399739013016 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399739013017 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 399739013018 FAD binding pocket [chemical binding]; other site 399739013019 FAD binding motif [chemical binding]; other site 399739013020 phosphate binding motif [ion binding]; other site 399739013021 beta-alpha-beta structure motif; other site 399739013022 NAD binding pocket [chemical binding]; other site 399739013023 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 399739013024 catalytic loop [active] 399739013025 iron binding site [ion binding]; other site 399739013026 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 399739013027 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 399739013028 [2Fe-2S] cluster binding site [ion binding]; other site 399739013029 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 399739013030 putative alpha subunit interface [polypeptide binding]; other site 399739013031 putative active site [active] 399739013032 putative substrate binding site [chemical binding]; other site 399739013033 Fe binding site [ion binding]; other site 399739013034 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 399739013035 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 399739013036 G1 box; other site 399739013037 putative GEF interaction site [polypeptide binding]; other site 399739013038 GTP/Mg2+ binding site [chemical binding]; other site 399739013039 Switch I region; other site 399739013040 G2 box; other site 399739013041 G3 box; other site 399739013042 Switch II region; other site 399739013043 G4 box; other site 399739013044 G5 box; other site 399739013045 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 399739013046 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 399739013047 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 399739013048 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 399739013049 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 399739013050 Ligand Binding Site [chemical binding]; other site 399739013051 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 399739013052 active site residue [active] 399739013053 glutamine synthetase; Provisional; Region: glnA; PRK09469 399739013054 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 399739013055 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739013056 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739013057 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399739013058 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 399739013059 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 399739013060 dimer interface [polypeptide binding]; other site 399739013061 phosphorylation site [posttranslational modification] 399739013062 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 399739013063 ATP binding site [chemical binding]; other site 399739013064 Mg2+ binding site [ion binding]; other site 399739013065 G-X-G motif; other site 399739013066 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 399739013067 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 399739013068 active site 399739013069 phosphorylation site [posttranslational modification] 399739013070 intermolecular recognition site; other site 399739013071 dimerization interface [polypeptide binding]; other site 399739013072 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 399739013073 Walker A motif; other site 399739013074 ATP binding site [chemical binding]; other site 399739013075 Walker B motif; other site 399739013076 arginine finger; other site 399739013077 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739013078 TM2 domain; Region: TM2; cl00984 399739013079 TM2 domain; Region: TM2; cl00984 399739013080 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 399739013081 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 399739013082 FeS/SAM binding site; other site 399739013083 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 399739013084 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 399739013085 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 399739013086 Walker A motif; other site 399739013087 ATP binding site [chemical binding]; other site 399739013088 Walker B motif; other site 399739013089 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 399739013090 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 399739013091 Walker A motif; other site 399739013092 ATP binding site [chemical binding]; other site 399739013093 Walker B motif; other site 399739013094 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 399739013095 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399739013096 catalytic residue [active] 399739013097 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 399739013098 pyrroline-5-carboxylate reductase; Region: PLN02688 399739013099 YGGT family; Region: YGGT; pfam02325 399739013100 YGGT family; Region: YGGT; pfam02325 399739013101 hypothetical protein; Validated; Region: PRK05090 399739013102 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 399739013103 G1 box; other site 399739013104 GTP/Mg2+ binding site [chemical binding]; other site 399739013105 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 399739013106 G2 box; other site 399739013107 Switch I region; other site 399739013108 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 399739013109 G3 box; other site 399739013110 Switch II region; other site 399739013111 GTP/Mg2+ binding site [chemical binding]; other site 399739013112 G4 box; other site 399739013113 G5 box; other site 399739013114 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 399739013115 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 399739013116 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 399739013117 S-adenosylmethionine binding site [chemical binding]; other site 399739013118 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 399739013119 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 399739013120 active site 399739013121 dimerization interface [polypeptide binding]; other site 399739013122 HemN family oxidoreductase; Provisional; Region: PRK05660 399739013123 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 399739013124 FeS/SAM binding site; other site 399739013125 HemN C-terminal domain; Region: HemN_C; pfam06969 399739013126 type II secretion system protein D; Region: type_II_gspD; TIGR02517 399739013127 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739013128 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739013129 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399739013130 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399739013131 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 399739013132 active site 399739013133 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 399739013134 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 399739013135 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399739013136 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399739013137 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 399739013138 S-adenosylmethionine binding site [chemical binding]; other site 399739013139 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 399739013140 ThiS interaction site; other site 399739013141 putative active site [active] 399739013142 tetramer interface [polypeptide binding]; other site 399739013143 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 399739013144 thiS-thiF/thiG interaction site; other site 399739013145 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 399739013146 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 399739013147 Transglycosylase; Region: Transgly; cl17702 399739013148 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 399739013149 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739013150 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 399739013151 DNA binding residues [nucleotide binding] 399739013152 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 399739013153 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 399739013154 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 399739013155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739013156 Walker A/P-loop; other site 399739013157 ATP binding site [chemical binding]; other site 399739013158 Q-loop/lid; other site 399739013159 ABC transporter signature motif; other site 399739013160 Walker B; other site 399739013161 D-loop; other site 399739013162 H-loop/switch region; other site 399739013163 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 399739013164 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 399739013165 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 399739013166 P loop; other site 399739013167 GTP binding site [chemical binding]; other site 399739013168 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399739013169 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399739013170 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399739013171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399739013172 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399739013173 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 399739013174 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 399739013175 S-adenosylmethionine binding site [chemical binding]; other site 399739013176 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 399739013177 SnoaL-like domain; Region: SnoaL_3; pfam13474 399739013178 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; cd00531 399739013179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399739013180 Histidine kinase; Region: HisKA_3; pfam07730 399739013181 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 399739013182 ATP binding site [chemical binding]; other site 399739013183 Mg2+ binding site [ion binding]; other site 399739013184 G-X-G motif; other site 399739013185 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399739013186 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 399739013187 active site 399739013188 phosphorylation site [posttranslational modification] 399739013189 intermolecular recognition site; other site 399739013190 dimerization interface [polypeptide binding]; other site 399739013191 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 399739013192 DNA binding residues [nucleotide binding] 399739013193 dimerization interface [polypeptide binding]; other site 399739013194 CHASE3 domain; Region: CHASE3; pfam05227 399739013195 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739013196 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 399739013197 putative active site [active] 399739013198 heme pocket [chemical binding]; other site 399739013199 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 399739013200 dimer interface [polypeptide binding]; other site 399739013201 phosphorylation site [posttranslational modification] 399739013202 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 399739013203 ATP binding site [chemical binding]; other site 399739013204 G-X-G motif; other site 399739013205 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739013206 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 399739013207 active site 399739013208 phosphorylation site [posttranslational modification] 399739013209 intermolecular recognition site; other site 399739013210 dimerization interface [polypeptide binding]; other site 399739013211 Response regulator receiver domain; Region: Response_reg; pfam00072 399739013212 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 399739013213 active site 399739013214 phosphorylation site [posttranslational modification] 399739013215 intermolecular recognition site; other site 399739013216 dimerization interface [polypeptide binding]; other site 399739013217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399739013218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399739013219 Bacterial transcriptional repressor; Region: TetR; pfam13972 399739013220 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 399739013221 NAD(P) binding site [chemical binding]; other site 399739013222 catalytic residues [active] 399739013223 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 399739013224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399739013225 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399739013226 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 399739013227 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 399739013228 active site 399739013229 (T/H)XGH motif; other site 399739013230 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 399739013231 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 399739013232 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 399739013233 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 399739013234 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 399739013235 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 399739013236 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399739013237 putative acyl-acceptor binding pocket; other site 399739013238 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 399739013239 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 399739013240 DNA binding site [nucleotide binding] 399739013241 catalytic residue [active] 399739013242 H2TH interface [polypeptide binding]; other site 399739013243 putative catalytic residues [active] 399739013244 turnover-facilitating residue; other site 399739013245 intercalation triad [nucleotide binding]; other site 399739013246 8OG recognition residue [nucleotide binding]; other site 399739013247 putative reading head residues; other site 399739013248 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 399739013249 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 399739013250 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 399739013251 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 399739013252 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 399739013253 putative RNA binding site [nucleotide binding]; other site 399739013254 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 399739013255 S-adenosylmethionine binding site [chemical binding]; other site 399739013256 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399739013257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739013258 Walker A/P-loop; other site 399739013259 ATP binding site [chemical binding]; other site 399739013260 Q-loop/lid; other site 399739013261 ABC transporter signature motif; other site 399739013262 Walker B; other site 399739013263 D-loop; other site 399739013264 H-loop/switch region; other site 399739013265 TOBE domain; Region: TOBE_2; pfam08402 399739013266 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 399739013267 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739013268 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 399739013269 putative PBP binding loops; other site 399739013270 ABC-ATPase subunit interface; other site 399739013271 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399739013272 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 399739013273 dimer interface [polypeptide binding]; other site 399739013274 conserved gate region; other site 399739013275 putative PBP binding loops; other site 399739013276 ABC-ATPase subunit interface; other site 399739013277 chlorophyllase; Region: PLN00021 399739013278 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 399739013279 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 399739013280 active site 399739013281 metal binding site [ion binding]; metal-binding site 399739013282 homotetramer interface [polypeptide binding]; other site 399739013283 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 399739013284 dimer interface [polypeptide binding]; other site 399739013285 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399739013286 active site 399739013287 metal binding site [ion binding]; metal-binding site 399739013288 glutathione binding site [chemical binding]; other site 399739013289 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 399739013290 Uncharacterized conserved protein [Function unknown]; Region: COG1284 399739013291 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 399739013292 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 399739013293 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 399739013294 folate binding site [chemical binding]; other site 399739013295 NADP+ binding site [chemical binding]; other site 399739013296 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 399739013297 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 399739013298 putative active site [active] 399739013299 catalytic site [active] 399739013300 putative metal binding site [ion binding]; other site 399739013301 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 399739013302 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 399739013303 G1 box; other site 399739013304 GTP/Mg2+ binding site [chemical binding]; other site 399739013305 G2 box; other site 399739013306 Switch I region; other site 399739013307 G3 box; other site 399739013308 Switch II region; other site 399739013309 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 399739013310 G5 box; other site 399739013311 thymidylate synthase; Reviewed; Region: thyA; PRK01827 399739013312 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 399739013313 dimerization interface [polypeptide binding]; other site 399739013314 active site 399739013315 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 399739013316 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399739013317 NRDE protein; Region: NRDE; cl01315 399739013318 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 399739013319 GAF domain; Region: GAF; pfam01590 399739013320 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 399739013321 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399739013322 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399739013323 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 399739013324 putative active site [active] 399739013325 Ap4A binding site [chemical binding]; other site 399739013326 nudix motif; other site 399739013327 putative metal binding site [ion binding]; other site 399739013328 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 399739013329 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 399739013330 motif II; other site 399739013331 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 399739013332 threonine dehydratase; Reviewed; Region: PRK09224 399739013333 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 399739013334 tetramer interface [polypeptide binding]; other site 399739013335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739013336 catalytic residue [active] 399739013337 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 399739013338 putative Ile/Val binding site [chemical binding]; other site 399739013339 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 399739013340 putative Ile/Val binding site [chemical binding]; other site 399739013341 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 399739013342 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 399739013343 tetramer (dimer of dimers) interface [polypeptide binding]; other site 399739013344 active site 399739013345 dimer interface [polypeptide binding]; other site 399739013346 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 399739013347 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399739013348 Heavy-metal-associated domain; Region: HMA; pfam00403 399739013349 metal-binding site [ion binding] 399739013350 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399739013351 Soluble P-type ATPase [General function prediction only]; Region: COG4087 399739013352 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 399739013353 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 399739013354 DNA binding residues [nucleotide binding] 399739013355 dimer interface [polypeptide binding]; other site 399739013356 putative metal binding site [ion binding]; other site 399739013357 SdiA-regulated; Region: SdiA-regulated; pfam06977 399739013358 SdiA-regulated; Region: SdiA-regulated; cd09971 399739013359 putative active site [active] 399739013360 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 399739013361 SdiA-regulated; Region: SdiA-regulated; pfam06977 399739013362 SdiA-regulated; Region: SdiA-regulated; cd09971 399739013363 putative active site [active] 399739013364 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 399739013365 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 399739013366 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 399739013367 FAD binding domain; Region: FAD_binding_4; pfam01565 399739013368 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 399739013369 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 399739013370 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 399739013371 ligand binding site [chemical binding]; other site 399739013372 NAD binding site [chemical binding]; other site 399739013373 tetramer interface [polypeptide binding]; other site 399739013374 catalytic site [active] 399739013375 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 399739013376 L-serine binding site [chemical binding]; other site 399739013377 ACT domain interface; other site 399739013378 Uncharacterized conserved protein [Function unknown]; Region: COG1683 399739013379 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 399739013380 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 399739013381 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 399739013382 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399739013383 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739013384 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 399739013385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739013386 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 399739013387 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 399739013388 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 399739013389 active site 399739013390 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 399739013391 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 399739013392 SecA binding site; other site 399739013393 Preprotein binding site; other site 399739013394 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 399739013395 GSH binding site [chemical binding]; other site 399739013396 catalytic residues [active] 399739013397 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 399739013398 active site residue [active] 399739013399 phosphoglyceromutase; Provisional; Region: PRK05434 399739013400 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 399739013401 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 399739013402 Peptidase family M23; Region: Peptidase_M23; pfam01551 399739013403 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399739013404 C-terminal peptidase (prc); Region: prc; TIGR00225 399739013405 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 399739013406 protein binding site [polypeptide binding]; other site 399739013407 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 399739013408 Catalytic dyad [active] 399739013409 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 399739013410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739013411 substrate binding pocket [chemical binding]; other site 399739013412 membrane-bound complex binding site; other site 399739013413 hinge residues; other site 399739013414 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 399739013415 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739013416 substrate binding pocket [chemical binding]; other site 399739013417 membrane-bound complex binding site; other site 399739013418 hinge residues; other site 399739013419 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 399739013420 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 399739013421 substrate binding pocket [chemical binding]; other site 399739013422 membrane-bound complex binding site; other site 399739013423 hinge residues; other site 399739013424 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 399739013425 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 399739013426 substrate binding site [chemical binding]; other site 399739013427 glutamase interaction surface [polypeptide binding]; other site 399739013428 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 399739013429 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 399739013430 catalytic residues [active] 399739013431 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 399739013432 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 399739013433 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 399739013434 putative active site [active] 399739013435 oxyanion strand; other site 399739013436 catalytic triad [active] 399739013437 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 399739013438 putative active site pocket [active] 399739013439 4-fold oligomerization interface [polypeptide binding]; other site 399739013440 metal binding residues [ion binding]; metal-binding site 399739013441 3-fold/trimer interface [polypeptide binding]; other site 399739013442 Predicted dehydrogenase [General function prediction only]; Region: COG0579 399739013443 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399739013444 AsmA family; Region: AsmA; pfam05170 399739013445 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399739013446 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 399739013447 adenine DNA glycosylase; Provisional; Region: PRK10880 399739013448 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399739013449 minor groove reading motif; other site 399739013450 helix-hairpin-helix signature motif; other site 399739013451 substrate binding pocket [chemical binding]; other site 399739013452 active site 399739013453 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 399739013454 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 399739013455 DNA binding and oxoG recognition site [nucleotide binding] 399739013456 oxidative damage protection protein; Provisional; Region: PRK05408 399739013457 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399739013458 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 399739013459 active site 399739013460 DNA binding site [nucleotide binding] 399739013461 Int/Topo IB signature motif; other site 399739013462 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 399739013463 active site 399739013464 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 399739013465 RNA/DNA hybrid binding site [nucleotide binding]; other site 399739013466 active site 399739013467 ParB-like nuclease domain; Region: ParBc; pfam02195 399739013468 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 399739013469 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 399739013470 catalytic residues [active] 399739013471 catalytic nucleophile [active] 399739013472 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 399739013473 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399739013474 Walker A/P-loop; other site 399739013475 ATP binding site [chemical binding]; other site 399739013476 Q-loop/lid; other site 399739013477 ABC transporter signature motif; other site 399739013478 Walker B; other site 399739013479 D-loop; other site 399739013480 H-loop/switch region; other site 399739013481 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739013482 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 399739013483 substrate binding pocket [chemical binding]; other site 399739013484 membrane-bound complex binding site; other site 399739013485 hinge residues; other site 399739013486 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739013487 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 399739013488 dimer interface [polypeptide binding]; other site 399739013489 conserved gate region; other site 399739013490 putative PBP binding loops; other site 399739013491 ABC-ATPase subunit interface; other site 399739013492 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 399739013493 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 399739013494 dimer interface [polypeptide binding]; other site 399739013495 conserved gate region; other site 399739013496 putative PBP binding loops; other site 399739013497 ABC-ATPase subunit interface; other site 399739013498 Methyltransferase domain; Region: Methyltransf_32; pfam13679 399739013499 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 399739013500 Acyltransferase family; Region: Acyl_transf_3; pfam01757 399739013501 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 399739013502 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399739013503 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 399739013504 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 399739013505 trimer interface [polypeptide binding]; other site 399739013506 active site 399739013507 substrate binding site [chemical binding]; other site 399739013508 CoA binding site [chemical binding]; other site 399739013509 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 399739013510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739013511 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 399739013512 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 399739013513 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 399739013514 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 399739013515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399739013516 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 399739013517 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 399739013518 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 399739013519 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 399739013520 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 399739013521 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 399739013522 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 399739013523 active site 399739013524 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 399739013525 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 399739013526 Substrate binding site; other site 399739013527 Cupin domain; Region: Cupin_2; cl17218 399739013528 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 399739013529 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 399739013530 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 399739013531 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 399739013532 NAD binding site [chemical binding]; other site 399739013533 substrate binding site [chemical binding]; other site 399739013534 homodimer interface [polypeptide binding]; other site 399739013535 active site 399739013536 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 399739013537 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 399739013538 substrate binding site; other site 399739013539 tetramer interface; other site 399739013540 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 399739013541 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 399739013542 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 399739013543 NADP binding site [chemical binding]; other site 399739013544 active site 399739013545 putative substrate binding site [chemical binding]; other site 399739013546 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 399739013547 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 399739013548 dimer interface [polypeptide binding]; other site 399739013549 phosphorylation site [posttranslational modification] 399739013550 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 399739013551 ATP binding site [chemical binding]; other site 399739013552 G-X-G motif; other site 399739013553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739013554 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 399739013555 active site 399739013556 phosphorylation site [posttranslational modification] 399739013557 intermolecular recognition site; other site 399739013558 dimerization interface [polypeptide binding]; other site 399739013559 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 399739013560 Walker A motif; other site 399739013561 ATP binding site [chemical binding]; other site 399739013562 Walker B motif; other site 399739013563 arginine finger; other site 399739013564 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 399739013565 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739013566 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399739013567 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 399739013568 DctM-like transporters; Region: DctM; pfam06808 399739013569 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 399739013570 Protein of unknown function (DUF502); Region: DUF502; cl01107 399739013571 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399739013572 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 399739013573 putative DNA binding site [nucleotide binding]; other site 399739013574 putative Zn2+ binding site [ion binding]; other site 399739013575 AsnC family; Region: AsnC_trans_reg; pfam01037 399739013576 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399739013577 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 399739013578 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 399739013579 Walker A motif; other site 399739013580 ATP binding site [chemical binding]; other site 399739013581 Walker B motif; other site 399739013582 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 399739013583 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399739013584 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 399739013585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 399739013586 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 399739013587 outer membrane porin, OprD family; Region: OprD; pfam03573 399739013588 PAS domain S-box; Region: sensory_box; TIGR00229 399739013589 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 399739013590 putative active site [active] 399739013591 heme pocket [chemical binding]; other site 399739013592 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739013593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739013594 metal binding site [ion binding]; metal-binding site 399739013595 active site 399739013596 I-site; other site 399739013597 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399739013598 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 399739013599 Di-iron ligands [ion binding]; other site 399739013600 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 399739013601 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739013602 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 399739013603 PAS fold; Region: PAS_3; pfam08447 399739013604 putative active site [active] 399739013605 heme pocket [chemical binding]; other site 399739013606 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 399739013607 PAS domain; Region: PAS_9; pfam13426 399739013608 putative active site [active] 399739013609 heme pocket [chemical binding]; other site 399739013610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739013611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739013612 metal binding site [ion binding]; metal-binding site 399739013613 active site 399739013614 I-site; other site 399739013615 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 399739013616 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399739013617 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 399739013618 active site 399739013619 phosphorylation site [posttranslational modification] 399739013620 intermolecular recognition site; other site 399739013621 dimerization interface [polypeptide binding]; other site 399739013622 HDOD domain; Region: HDOD; pfam08668 399739013623 PAS domain S-box; Region: sensory_box; TIGR00229 399739013624 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 399739013625 putative active site [active] 399739013626 heme pocket [chemical binding]; other site 399739013627 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 399739013628 PAS fold; Region: PAS_3; pfam08447 399739013629 putative active site [active] 399739013630 heme pocket [chemical binding]; other site 399739013631 PAS domain S-box; Region: sensory_box; TIGR00229 399739013632 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 399739013633 putative active site [active] 399739013634 heme pocket [chemical binding]; other site 399739013635 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739013636 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 399739013637 putative active site [active] 399739013638 heme pocket [chemical binding]; other site 399739013639 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 399739013640 dimer interface [polypeptide binding]; other site 399739013641 phosphorylation site [posttranslational modification] 399739013642 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 399739013643 ATP binding site [chemical binding]; other site 399739013644 Mg2+ binding site [ion binding]; other site 399739013645 G-X-G motif; other site 399739013646 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399739013647 GAF domain; Region: GAF; pfam01590 399739013648 PAS domain S-box; Region: sensory_box; TIGR00229 399739013649 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 399739013650 putative active site [active] 399739013651 heme pocket [chemical binding]; other site 399739013652 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 399739013653 PAS fold; Region: PAS_3; pfam08447 399739013654 putative active site [active] 399739013655 heme pocket [chemical binding]; other site 399739013656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399739013657 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 399739013658 dimer interface [polypeptide binding]; other site 399739013659 phosphorylation site [posttranslational modification] 399739013660 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 399739013661 ATP binding site [chemical binding]; other site 399739013662 Mg2+ binding site [ion binding]; other site 399739013663 G-X-G motif; other site 399739013664 CHASE domain; Region: CHASE; pfam03924 399739013665 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 399739013666 PAS fold; Region: PAS_3; pfam08447 399739013667 putative active site [active] 399739013668 heme pocket [chemical binding]; other site 399739013669 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 399739013670 dimer interface [polypeptide binding]; other site 399739013671 phosphorylation site [posttranslational modification] 399739013672 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 399739013673 ATP binding site [chemical binding]; other site 399739013674 Mg2+ binding site [ion binding]; other site 399739013675 G-X-G motif; other site 399739013676 Response regulator receiver domain; Region: Response_reg; pfam00072 399739013677 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 399739013678 active site 399739013679 phosphorylation site [posttranslational modification] 399739013680 intermolecular recognition site; other site 399739013681 dimerization interface [polypeptide binding]; other site 399739013682 Response regulator receiver domain; Region: Response_reg; pfam00072 399739013683 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 399739013684 active site 399739013685 phosphorylation site [posttranslational modification] 399739013686 intermolecular recognition site; other site 399739013687 dimerization interface [polypeptide binding]; other site 399739013688 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 399739013689 active site 399739013690 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 399739013691 phosphorylation site [posttranslational modification] 399739013692 intermolecular recognition site; other site 399739013693 dimerization interface [polypeptide binding]; other site 399739013694 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 399739013695 active site 399739013696 phosphorylation site [posttranslational modification] 399739013697 intermolecular recognition site; other site 399739013698 dimerization interface [polypeptide binding]; other site 399739013699 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739013700 metal binding site [ion binding]; metal-binding site 399739013701 active site 399739013702 I-site; other site 399739013703 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399739013704 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 399739013705 dimer interface [polypeptide binding]; other site 399739013706 conserved gate region; other site 399739013707 putative PBP binding loops; other site 399739013708 ABC-ATPase subunit interface; other site 399739013709 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399739013710 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 399739013711 dimer interface [polypeptide binding]; other site 399739013712 conserved gate region; other site 399739013713 putative PBP binding loops; other site 399739013714 ABC-ATPase subunit interface; other site 399739013715 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739013716 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399739013717 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 399739013718 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 399739013719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739013720 Walker A/P-loop; other site 399739013721 ATP binding site [chemical binding]; other site 399739013722 Q-loop/lid; other site 399739013723 ABC transporter signature motif; other site 399739013724 Walker B; other site 399739013725 D-loop; other site 399739013726 H-loop/switch region; other site 399739013727 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 399739013728 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 399739013729 dimer interface [polypeptide binding]; other site 399739013730 conserved gate region; other site 399739013731 putative PBP binding loops; other site 399739013732 ABC-ATPase subunit interface; other site 399739013733 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 399739013734 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 399739013735 active site 399739013736 dimer interface [polypeptide binding]; other site 399739013737 non-prolyl cis peptide bond; other site 399739013738 insertion regions; other site 399739013739 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 399739013740 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 399739013741 substrate binding pocket [chemical binding]; other site 399739013742 membrane-bound complex binding site; other site 399739013743 hinge residues; other site 399739013744 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 399739013745 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399739013746 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 399739013747 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 399739013748 dimer interface [polypeptide binding]; other site 399739013749 decamer (pentamer of dimers) interface [polypeptide binding]; other site 399739013750 catalytic triad [active] 399739013751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739013752 Coenzyme A binding pocket [chemical binding]; other site 399739013753 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 399739013754 Chromate transporter; Region: Chromate_transp; pfam02417 399739013755 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 399739013756 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 399739013757 TPR motif; other site 399739013758 binding surface 399739013759 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 399739013760 binding surface 399739013761 TPR motif; other site 399739013762 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 399739013763 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 399739013764 Walker A/P-loop; other site 399739013765 ATP binding site [chemical binding]; other site 399739013766 Q-loop/lid; other site 399739013767 ABC transporter signature motif; other site 399739013768 Walker B; other site 399739013769 D-loop; other site 399739013770 H-loop/switch region; other site 399739013771 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 399739013772 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 399739013773 dimer interface [polypeptide binding]; other site 399739013774 conserved gate region; other site 399739013775 putative PBP binding loops; other site 399739013776 ABC-ATPase subunit interface; other site 399739013777 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 399739013778 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 399739013779 substrate binding pocket [chemical binding]; other site 399739013780 membrane-bound complex binding site; other site 399739013781 hinge residues; other site 399739013782 outer membrane porin, OprD family; Region: OprD; pfam03573 399739013783 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 399739013784 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 399739013785 substrate binding pocket [chemical binding]; other site 399739013786 membrane-bound complex binding site; other site 399739013787 hinge residues; other site 399739013788 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 399739013789 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 399739013790 Flavin binding site [chemical binding]; other site 399739013791 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 399739013792 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 399739013793 active site residue [active] 399739013794 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 399739013795 active site residue [active] 399739013796 H+ Antiporter protein; Region: 2A0121; TIGR00900 399739013797 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399739013798 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 399739013799 S-adenosylmethionine binding site [chemical binding]; other site 399739013800 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399739013801 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399739013802 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399739013803 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 399739013804 dimer interface [polypeptide binding]; other site 399739013805 conserved gate region; other site 399739013806 putative PBP binding loops; other site 399739013807 ABC-ATPase subunit interface; other site 399739013808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399739013809 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 399739013810 Walker A/P-loop; other site 399739013811 ATP binding site [chemical binding]; other site 399739013812 Q-loop/lid; other site 399739013813 ABC transporter signature motif; other site 399739013814 Walker B; other site 399739013815 D-loop; other site 399739013816 H-loop/switch region; other site 399739013817 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 399739013818 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 399739013819 Walker A motif; other site 399739013820 ATP binding site [chemical binding]; other site 399739013821 Walker B motif; other site 399739013822 Serine hydrolase; Region: Ser_hydrolase; pfam06821 399739013823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399739013824 Uncharacterized small protein [Function unknown]; Region: COG5583 399739013825 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 399739013826 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399739013827 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399739013828 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 399739013829 dimer interface [polypeptide binding]; other site 399739013830 conserved gate region; other site 399739013831 putative PBP binding loops; other site 399739013832 ABC-ATPase subunit interface; other site 399739013833 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399739013834 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 399739013835 dimer interface [polypeptide binding]; other site 399739013836 conserved gate region; other site 399739013837 putative PBP binding loops; other site 399739013838 ABC-ATPase subunit interface; other site 399739013839 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 399739013840 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 399739013841 Walker A/P-loop; other site 399739013842 ATP binding site [chemical binding]; other site 399739013843 Q-loop/lid; other site 399739013844 ABC transporter signature motif; other site 399739013845 Walker B; other site 399739013846 D-loop; other site 399739013847 H-loop/switch region; other site 399739013848 TOBE-like domain; Region: TOBE_3; pfam12857 399739013849 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 399739013850 Predicted membrane protein [Function unknown]; Region: COG4539 399739013851 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399739013852 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 399739013853 ligand binding site [chemical binding]; other site 399739013854 flexible hinge region; other site 399739013855 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 399739013856 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 399739013857 metal binding site [ion binding]; metal-binding site 399739013858 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 399739013859 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 399739013860 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 399739013861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739013862 NAD(P) binding site [chemical binding]; other site 399739013863 active site 399739013864 outer membrane porin, OprD family; Region: OprD; pfam03573 399739013865 Tannase and feruloyl esterase; Region: Tannase; pfam07519 399739013866 PAS fold; Region: PAS_4; pfam08448 399739013867 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399739013868 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 399739013869 Walker A motif; other site 399739013870 ATP binding site [chemical binding]; other site 399739013871 Walker B motif; other site 399739013872 arginine finger; other site 399739013873 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 399739013874 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 399739013875 DctM-like transporters; Region: DctM; pfam06808 399739013876 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 399739013877 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 399739013878 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 399739013879 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 399739013880 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 399739013881 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739013882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739013883 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 399739013884 putative effector binding pocket; other site 399739013885 dimerization interface [polypeptide binding]; other site 399739013886 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399739013887 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399739013888 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739013889 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739013890 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739013891 dimer interface [polypeptide binding]; other site 399739013892 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 399739013893 putative CheW interface [polypeptide binding]; other site 399739013894 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 399739013895 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739013896 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739013897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739013898 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399739013899 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399739013900 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 399739013901 PAS domain; Region: PAS_9; pfam13426 399739013902 putative active site [active] 399739013903 heme pocket [chemical binding]; other site 399739013904 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739013905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739013906 metal binding site [ion binding]; metal-binding site 399739013907 active site 399739013908 I-site; other site 399739013909 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 399739013910 Response regulator receiver domain; Region: Response_reg; pfam00072 399739013911 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 399739013912 active site 399739013913 phosphorylation site [posttranslational modification] 399739013914 intermolecular recognition site; other site 399739013915 dimerization interface [polypeptide binding]; other site 399739013916 HDOD domain; Region: HDOD; pfam08668 399739013917 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 399739013918 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 399739013919 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 399739013920 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 399739013921 peptide binding site [polypeptide binding]; other site 399739013922 hypothetical protein; Reviewed; Region: PRK00024 399739013923 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 399739013924 MPN+ (JAMM) motif; other site 399739013925 Zinc-binding site [ion binding]; other site 399739013926 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 399739013927 Flavoprotein; Region: Flavoprotein; pfam02441 399739013928 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 399739013929 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 399739013930 trimer interface [polypeptide binding]; other site 399739013931 active site 399739013932 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 399739013933 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 399739013934 active site 399739013935 substrate binding site [chemical binding]; other site 399739013936 metal binding site [ion binding]; metal-binding site 399739013937 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 399739013938 feedback inhibition sensing region; other site 399739013939 homohexameric interface [polypeptide binding]; other site 399739013940 nucleotide binding site [chemical binding]; other site 399739013941 N-acetyl-L-glutamate binding site [chemical binding]; other site 399739013942 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 399739013943 active site 399739013944 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 399739013945 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399739013946 active site 399739013947 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 399739013948 putative active site [active] 399739013949 putative catalytic site [active] 399739013950 putative DNA binding site [nucleotide binding]; other site 399739013951 putative phosphate binding site [ion binding]; other site 399739013952 metal binding site A [ion binding]; metal-binding site 399739013953 putative AP binding site [nucleotide binding]; other site 399739013954 putative metal binding site B [ion binding]; other site 399739013955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 399739013956 ribonuclease PH; Reviewed; Region: rph; PRK00173 399739013957 Ribonuclease PH; Region: RNase_PH_bact; cd11362 399739013958 hexamer interface [polypeptide binding]; other site 399739013959 active site 399739013960 hypothetical protein; Provisional; Region: PRK11820 399739013961 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 399739013962 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 399739013963 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 399739013964 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 399739013965 catalytic site [active] 399739013966 G-X2-G-X-G-K; other site 399739013967 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 399739013968 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 399739013969 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399739013970 Zn2+ binding site [ion binding]; other site 399739013971 Mg2+ binding site [ion binding]; other site 399739013972 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 399739013973 synthetase active site [active] 399739013974 NTP binding site [chemical binding]; other site 399739013975 metal binding site [ion binding]; metal-binding site 399739013976 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 399739013977 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 399739013978 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 399739013979 homotrimer interaction site [polypeptide binding]; other site 399739013980 putative active site [active] 399739013981 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399739013982 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739013983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739013984 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739013985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739013986 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399739013987 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 399739013988 putative NAD(P) binding site [chemical binding]; other site 399739013989 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 399739013990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739013991 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 399739013992 dimerization interface [polypeptide binding]; other site 399739013993 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 399739013994 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 399739013995 generic binding surface II; other site 399739013996 ssDNA binding site; other site 399739013997 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 399739013998 ATP binding site [chemical binding]; other site 399739013999 putative Mg++ binding site [ion binding]; other site 399739014000 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 399739014001 nucleotide binding region [chemical binding]; other site 399739014002 ATP-binding site [chemical binding]; other site 399739014003 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; cl00022 399739014004 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 399739014005 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 399739014006 IHF dimer interface [polypeptide binding]; other site 399739014007 IHF - DNA interface [nucleotide binding]; other site 399739014008 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 399739014009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399739014010 Rubredoxin [Energy production and conversion]; Region: COG1773 399739014011 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 399739014012 iron binding site [ion binding]; other site 399739014013 BCCT family transporter; Region: BCCT; cl00569 399739014014 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 399739014015 Domain of unknown function DUF21; Region: DUF21; pfam01595 399739014016 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 399739014017 Transporter associated domain; Region: CorC_HlyC; smart01091 399739014018 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 399739014019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399739014020 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 399739014021 putative active site [active] 399739014022 heme pocket [chemical binding]; other site 399739014023 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 399739014024 dimer interface [polypeptide binding]; other site 399739014025 phosphorylation site [posttranslational modification] 399739014026 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 399739014027 ATP binding site [chemical binding]; other site 399739014028 Mg2+ binding site [ion binding]; other site 399739014029 G-X-G motif; other site 399739014030 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 399739014031 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 399739014032 active site 399739014033 phosphorylation site [posttranslational modification] 399739014034 intermolecular recognition site; other site 399739014035 dimerization interface [polypeptide binding]; other site 399739014036 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 399739014037 DNA binding site [nucleotide binding] 399739014038 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 399739014039 UbiA prenyltransferase family; Region: UbiA; pfam01040 399739014040 Chorismate lyase; Region: Chor_lyase; cl01230 399739014041 FlgN protein; Region: FlgN; pfam05130 399739014042 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 399739014043 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 399739014044 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 399739014045 Walker A motif; other site 399739014046 ATP binding site [chemical binding]; other site 399739014047 Walker B motif; other site 399739014048 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 399739014049 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 399739014050 Flagellar assembly protein FliH; Region: FliH; pfam02108 399739014051 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 399739014052 MgtE intracellular N domain; Region: MgtE_N; smart00924 399739014053 FliG C-terminal domain; Region: FliG_C; pfam01706 399739014054 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 399739014055 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 399739014056 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 399739014057 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 399739014058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739014059 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 399739014060 Walker A motif; other site 399739014061 ATP binding site [chemical binding]; other site 399739014062 Walker B motif; other site 399739014063 arginine finger; other site 399739014064 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739014065 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 399739014066 flagellar motor switch protein FliN; Region: fliN; TIGR02480 399739014067 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 399739014068 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 399739014069 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 399739014070 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 399739014071 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 399739014072 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 399739014073 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 399739014074 FHIPEP family; Region: FHIPEP; pfam00771 399739014075 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 399739014076 CoA-transferase family III; Region: CoA_transf_3; pfam02515 399739014077 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 399739014078 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399739014079 FAD binding site [chemical binding]; other site 399739014080 substrate binding pocket [chemical binding]; other site 399739014081 catalytic base [active] 399739014082 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399739014083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739014084 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 399739014085 dimerization interface [polypeptide binding]; other site 399739014086 substrate binding pocket [chemical binding]; other site 399739014087 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 399739014088 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 399739014089 ligand binding site [chemical binding]; other site 399739014090 homodimer interface [polypeptide binding]; other site 399739014091 NAD(P) binding site [chemical binding]; other site 399739014092 trimer interface B [polypeptide binding]; other site 399739014093 trimer interface A [polypeptide binding]; other site 399739014094 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 399739014095 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 399739014096 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 399739014097 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 399739014098 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 399739014099 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 399739014100 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 399739014101 Uncharacterized conserved protein [Function unknown]; Region: COG3791 399739014102 Predicted permeases [General function prediction only]; Region: COG0679 399739014103 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 399739014104 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 399739014105 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 399739014106 Walker A motif; other site 399739014107 ATP binding site [chemical binding]; other site 399739014108 Walker B motif; other site 399739014109 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 399739014110 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 399739014111 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 399739014112 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 399739014113 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 399739014114 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 399739014115 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 399739014116 protein binding site [polypeptide binding]; other site 399739014117 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 399739014118 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399739014119 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 399739014120 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739014121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739014122 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 399739014123 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 399739014124 heme-binding site [chemical binding]; other site 399739014125 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 399739014126 PAS fold; Region: PAS_3; pfam08447 399739014127 putative active site [active] 399739014128 heme pocket [chemical binding]; other site 399739014129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399739014130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739014131 metal binding site [ion binding]; metal-binding site 399739014132 active site 399739014133 I-site; other site 399739014134 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 399739014135 PAS domain; Region: PAS_9; pfam13426 399739014136 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 399739014137 putative active site [active] 399739014138 heme pocket [chemical binding]; other site 399739014139 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399739014140 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399739014141 dimer interface [polypeptide binding]; other site 399739014142 putative CheW interface [polypeptide binding]; other site 399739014143 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 399739014144 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 399739014145 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 399739014146 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 399739014147 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 399739014148 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 399739014149 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399739014150 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 399739014151 motif II; other site 399739014152 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399739014153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739014154 Coenzyme A binding pocket [chemical binding]; other site 399739014155 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 399739014156 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 399739014157 trimer interface [polypeptide binding]; other site 399739014158 putative metal binding site [ion binding]; other site 399739014159 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 399739014160 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 399739014161 active site 399739014162 Zn binding site [ion binding]; other site 399739014163 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 399739014164 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739014165 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739014166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739014167 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 399739014168 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 399739014169 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 399739014170 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399739014171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739014172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399739014173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739014174 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 399739014175 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399739014176 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 399739014177 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 399739014178 dimer interface [polypeptide binding]; other site 399739014179 conserved gate region; other site 399739014180 putative PBP binding loops; other site 399739014181 ABC-ATPase subunit interface; other site 399739014182 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 399739014183 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 399739014184 dimer interface [polypeptide binding]; other site 399739014185 conserved gate region; other site 399739014186 ABC-ATPase subunit interface; other site 399739014187 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 399739014188 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 399739014189 Walker A/P-loop; other site 399739014190 ATP binding site [chemical binding]; other site 399739014191 Q-loop/lid; other site 399739014192 ABC transporter signature motif; other site 399739014193 Walker B; other site 399739014194 D-loop; other site 399739014195 H-loop/switch region; other site 399739014196 TOBE domain; Region: TOBE_2; pfam08402 399739014197 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 399739014198 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 399739014199 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 399739014200 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 399739014201 N- and C-terminal domain interface [polypeptide binding]; other site 399739014202 D-xylulose kinase; Region: XylB; TIGR01312 399739014203 active site 399739014204 MgATP binding site [chemical binding]; other site 399739014205 catalytic site [active] 399739014206 metal binding site [ion binding]; metal-binding site 399739014207 xylulose binding site [chemical binding]; other site 399739014208 putative homodimer interface [polypeptide binding]; other site 399739014209 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 399739014210 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 399739014211 putative substrate binding site [chemical binding]; other site 399739014212 putative ATP binding site [chemical binding]; other site 399739014213 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 399739014214 active site clefts [active] 399739014215 zinc binding site [ion binding]; other site 399739014216 dimer interface [polypeptide binding]; other site 399739014217 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 399739014218 Domain of unknown function (DUF897); Region: DUF897; cl01312 399739014219 pyruvate carboxylase subunit B; Validated; Region: PRK09282 399739014220 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 399739014221 active site 399739014222 catalytic residues [active] 399739014223 metal binding site [ion binding]; metal-binding site 399739014224 homodimer binding site [polypeptide binding]; other site 399739014225 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 399739014226 carboxyltransferase (CT) interaction site; other site 399739014227 biotinylation site [posttranslational modification]; other site 399739014228 pyruvate carboxylase subunit A; Validated; Region: PRK07178 399739014229 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399739014230 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399739014231 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399739014232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739014233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739014234 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 399739014235 dimerization interface [polypeptide binding]; other site 399739014236 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 399739014237 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 399739014238 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 399739014239 XdhC Rossmann domain; Region: XdhC_C; pfam13478 399739014240 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399739014241 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 399739014242 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739014243 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399739014244 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 399739014245 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 399739014246 catalytic loop [active] 399739014247 iron binding site [ion binding]; other site 399739014248 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399739014249 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 399739014250 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 399739014251 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 399739014252 putative active site [active] 399739014253 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 399739014254 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 399739014255 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 399739014256 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 399739014257 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 399739014258 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 399739014259 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 399739014260 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 399739014261 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 399739014262 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 399739014263 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399739014264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 399739014265 Transposase; Region: DDE_Tnp_ISL3; pfam01610 399739014266 Uncharacterized conserved protein [Function unknown]; Region: COG1262 399739014267 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 399739014268 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 399739014269 muropeptide transporter; Validated; Region: ampG; cl17669 399739014270 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 399739014271 intersubunit interface [polypeptide binding]; other site 399739014272 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 399739014273 metal binding site [ion binding]; metal-binding site 399739014274 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 399739014275 metal binding site 2 [ion binding]; metal-binding site 399739014276 putative DNA binding helix; other site 399739014277 metal binding site 1 [ion binding]; metal-binding site 399739014278 dimer interface [polypeptide binding]; other site 399739014279 structural Zn2+ binding site [ion binding]; other site 399739014280 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 399739014281 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 399739014282 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 399739014283 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 399739014284 dimer interface [polypeptide binding]; other site 399739014285 putative PBP binding regions; other site 399739014286 ABC-ATPase subunit interface; other site 399739014287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739014288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739014289 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 399739014290 dimerization interface [polypeptide binding]; other site 399739014291 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 399739014292 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 399739014293 Isochorismatase family; Region: Isochorismatase; pfam00857 399739014294 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 399739014295 catalytic triad [active] 399739014296 conserved cis-peptide bond; other site 399739014297 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 399739014298 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 399739014299 Walker A/P-loop; other site 399739014300 ATP binding site [chemical binding]; other site 399739014301 Q-loop/lid; other site 399739014302 ABC transporter signature motif; other site 399739014303 Walker B; other site 399739014304 D-loop; other site 399739014305 H-loop/switch region; other site 399739014306 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399739014307 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 399739014308 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 399739014309 dimer interface [polypeptide binding]; other site 399739014310 conserved gate region; other site 399739014311 ABC-ATPase subunit interface; other site 399739014312 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 399739014313 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 399739014314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 399739014315 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 399739014316 heme binding pocket [chemical binding]; other site 399739014317 heme ligand [chemical binding]; other site 399739014318 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 399739014319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399739014320 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 399739014321 DNA binding residues [nucleotide binding] 399739014322 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 399739014323 FecR protein; Region: FecR; pfam04773 399739014324 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 399739014325 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 399739014326 N-terminal plug; other site 399739014327 ligand-binding site [chemical binding]; other site 399739014328 PAS fold; Region: PAS_3; pfam08447 399739014329 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 399739014330 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 399739014331 PAS domain; Region: PAS_9; pfam13426 399739014332 putative active site [active] 399739014333 heme pocket [chemical binding]; other site 399739014334 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399739014335 metal binding site [ion binding]; metal-binding site 399739014336 active site 399739014337 I-site; other site 399739014338 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 399739014339 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 399739014340 Part of AAA domain; Region: AAA_19; pfam13245 399739014341 Family description; Region: UvrD_C_2; pfam13538 399739014342 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399739014343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 399739014344 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 399739014345 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 399739014346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 399739014347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399739014348 Coenzyme A binding pocket [chemical binding]; other site 399739014349 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 399739014350 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399739014351 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399739014352 DNA-binding site [nucleotide binding]; DNA binding site 399739014353 FCD domain; Region: FCD; pfam07729 399739014354 aminotransferase; Validated; Region: PRK07046 399739014355 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 399739014356 inhibitor-cofactor binding pocket; inhibition site 399739014357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399739014358 catalytic residue [active] 399739014359 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399739014360 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399739014361 Tetratricopeptide repeat; Region: TPR_12; pfam13424 399739014362 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 399739014363 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 399739014364 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 399739014365 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399739014366 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399739014367 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 399739014368 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 399739014369 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 399739014370 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 399739014371 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 399739014372 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 399739014373 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 399739014374 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 399739014375 putative GTP cyclohydrolase; Provisional; Region: PRK13674 399739014376 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 399739014377 Haemolytic domain; Region: Haemolytic; pfam01809 399739014378 dihydroorotase; Reviewed; Region: PRK09236 399739014379 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 399739014380 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 399739014381 active site 399739014382 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 399739014383 active site 399739014384 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 399739014385 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 399739014386 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 399739014387 ligand binding site [chemical binding]; other site 399739014388 flexible hinge region; other site 399739014389 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 399739014390 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399739014391 metal binding triad; other site 399739014392 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 399739014393 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 399739014394 active site 399739014395 catalytic site [active] 399739014396 substrate binding site [chemical binding]; other site 399739014397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739014398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739014399 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 399739014400 putative dimerization interface [polypeptide binding]; other site 399739014401 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 399739014402 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 399739014403 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 399739014404 BCCT family transporter; Region: BCCT; pfam02028 399739014405 Uncharacterized conserved protein [Function unknown]; Region: COG4104 399739014406 BCCT family transporter; Region: BCCT; pfam02028 399739014407 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 399739014408 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 399739014409 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 399739014410 putative active site [active] 399739014411 catalytic site [active] 399739014412 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 399739014413 putative active site [active] 399739014414 catalytic site [active] 399739014415 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 399739014416 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399739014417 substrate binding pocket [chemical binding]; other site 399739014418 membrane-bound complex binding site; other site 399739014419 hinge residues; other site 399739014420 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399739014421 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399739014422 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399739014423 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399739014424 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 399739014425 N-terminal plug; other site 399739014426 ligand-binding site [chemical binding]; other site 399739014427 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 399739014428 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 399739014429 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 399739014430 DctM-like transporters; Region: DctM; pfam06808 399739014431 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 399739014432 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399739014433 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399739014434 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 399739014435 active site 399739014436 phosphorylation site [posttranslational modification] 399739014437 intermolecular recognition site; other site 399739014438 dimerization interface [polypeptide binding]; other site 399739014439 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 399739014440 Walker A motif; other site 399739014441 ATP binding site [chemical binding]; other site 399739014442 Walker B motif; other site 399739014443 arginine finger; other site 399739014444 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399739014445 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 399739014446 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 399739014447 dimer interface [polypeptide binding]; other site 399739014448 phosphorylation site [posttranslational modification] 399739014449 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 399739014450 ATP binding site [chemical binding]; other site 399739014451 Mg2+ binding site [ion binding]; other site 399739014452 G-X-G motif; other site 399739014453 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 399739014454 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 399739014455 S-adenosylmethionine binding site [chemical binding]; other site 399739014456 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 399739014457 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 399739014458 ABC-ATPase subunit interface; other site 399739014459 dimer interface [polypeptide binding]; other site 399739014460 putative PBP binding regions; other site 399739014461 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 399739014462 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 399739014463 putative ligand binding residues [chemical binding]; other site 399739014464 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 399739014465 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399739014466 Walker A/P-loop; other site 399739014467 ATP binding site [chemical binding]; other site 399739014468 Q-loop/lid; other site 399739014469 ABC transporter signature motif; other site 399739014470 Walker B; other site 399739014471 D-loop; other site 399739014472 H-loop/switch region; other site 399739014473 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 399739014474 N-terminal plug; other site 399739014475 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399739014476 ligand-binding site [chemical binding]; other site 399739014477 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 399739014478 dimer interface [polypeptide binding]; other site 399739014479 [2Fe-2S] cluster binding site [ion binding]; other site 399739014480 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 399739014481 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 399739014482 active site 399739014483 putative homodimer interface [polypeptide binding]; other site 399739014484 SAM binding site [chemical binding]; other site 399739014485 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 399739014486 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 399739014487 S-adenosylmethionine binding site [chemical binding]; other site 399739014488 precorrin-3B synthase; Region: CobG; TIGR02435 399739014489 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399739014490 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399739014491 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 399739014492 Precorrin-8X methylmutase; Region: CbiC; pfam02570 399739014493 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 399739014494 active site 399739014495 SAM binding site [chemical binding]; other site 399739014496 homodimer interface [polypeptide binding]; other site 399739014497 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 399739014498 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 399739014499 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 399739014500 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 399739014501 active site 399739014502 SAM binding site [chemical binding]; other site 399739014503 homodimer interface [polypeptide binding]; other site 399739014504 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 399739014505 conserved cys residue [active] 399739014506 Helix-turn-helix domain; Region: HTH_18; pfam12833 399739014507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399739014508 LysE type translocator; Region: LysE; cl00565 399739014509 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 399739014510 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 399739014511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399739014512 NAD(P) binding site [chemical binding]; other site 399739014513 active site 399739014514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399739014515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399739014516 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 399739014517 putative effector binding pocket; other site 399739014518 dimerization interface [polypeptide binding]; other site 399739014519 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 399739014520 metabolite-proton symporter; Region: 2A0106; TIGR00883 399739014521 putative substrate translocation pore; other site 399739014522 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399739014523 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 399739014524 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 399739014525 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 399739014526 active site 399739014527 SAM binding site [chemical binding]; other site 399739014528 homodimer interface [polypeptide binding]; other site 399739014529 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 399739014530 metal ion-dependent adhesion site (MIDAS); other site 399739014531 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 399739014532 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 399739014533 Walker A motif; other site 399739014534 ATP binding site [chemical binding]; other site 399739014535 Walker B motif; other site 399739014536 arginine finger; other site 399739014537 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 399739014538 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 399739014539 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 399739014540 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 399739014541 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 399739014542 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 399739014543 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 399739014544 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 399739014545 active site 399739014546 SAM binding site [chemical binding]; other site 399739014547 homodimer interface [polypeptide binding]; other site 399739014548 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 399739014549 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 399739014550 active site 399739014551 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399739014552 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399739014553 tetrameric interface [polypeptide binding]; other site 399739014554 NAD binding site [chemical binding]; other site 399739014555 catalytic residues [active] 399739014556 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 399739014557 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 399739014558 putative active site [active] 399739014559 metal binding site [ion binding]; metal-binding site 399739014560 Transcriptional regulator [Transcription]; Region: IclR; COG1414 399739014561 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 399739014562 putative DNA binding site [nucleotide binding]; other site 399739014563 putative Zn2+ binding site [ion binding]; other site 399739014564 Bacterial transcriptional regulator; Region: IclR; pfam01614 399739014565 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 399739014566 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 399739014567 ligand binding site [chemical binding]; other site 399739014568 regulator interaction site; other site 399739014569 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 399739014570 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 399739014571 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 399739014572 Na binding site [ion binding]; other site 399739014573 Predicted amidohydrolase [General function prediction only]; Region: COG0388 399739014574 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R1; cd07578 399739014575 putative active site [active] 399739014576 catalytic triad [active] 399739014577 putative dimer interface [polypeptide binding]; other site 399739014578 Predicted amidohydrolase [General function prediction only]; Region: COG0388 399739014579 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 399739014580 putative active site [active] 399739014581 catalytic triad [active] 399739014582 putative dimer interface [polypeptide binding]; other site 399739014583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399739014584 Transposase; Region: HTH_Tnp_1; pfam01527 399739014585 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 399739014586 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 399739014587 glutaminase active site [active] 399739014588 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 399739014589 dimer interface [polypeptide binding]; other site 399739014590 active site 399739014591 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 399739014592 dimer interface [polypeptide binding]; other site 399739014593 active site 399739014594 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 399739014595 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 399739014596 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 399739014597 LysE type translocator; Region: LysE; cl00565 399739014598 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 399739014599 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 399739014600 Substrate binding site; other site 399739014601 Mg++ binding site; other site 399739014602 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 399739014603 active site 399739014604 substrate binding site [chemical binding]; other site 399739014605 CoA binding site [chemical binding]; other site 399739014606 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 399739014607 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 399739014608 gamma subunit interface [polypeptide binding]; other site 399739014609 epsilon subunit interface [polypeptide binding]; other site 399739014610 LBP interface [polypeptide binding]; other site 399739014611 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 399739014612 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 399739014613 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 399739014614 alpha subunit interaction interface [polypeptide binding]; other site 399739014615 Walker A motif; other site 399739014616 ATP binding site [chemical binding]; other site 399739014617 Walker B motif; other site 399739014618 inhibitor binding site; inhibition site 399739014619 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 399739014620 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 399739014621 core domain interface [polypeptide binding]; other site 399739014622 delta subunit interface [polypeptide binding]; other site 399739014623 epsilon subunit interface [polypeptide binding]; other site 399739014624 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 399739014625 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 399739014626 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 399739014627 beta subunit interaction interface [polypeptide binding]; other site 399739014628 Walker A motif; other site 399739014629 ATP binding site [chemical binding]; other site 399739014630 Walker B motif; other site 399739014631 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 399739014632 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 399739014633 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 399739014634 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 399739014635 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 399739014636 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 399739014637 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 399739014638 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 399739014639 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 399739014640 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 399739014641 ParB-like nuclease domain; Region: ParBc; pfam02195 399739014642 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399739014643 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 399739014644 P-loop; other site 399739014645 Magnesium ion binding site [ion binding]; other site 399739014646 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 399739014647 Magnesium ion binding site [ion binding]; other site 399739014648 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 399739014649 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 399739014650 S-adenosylmethionine binding site [chemical binding]; other site 399739014651 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 399739014652 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 399739014653 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 399739014654 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 399739014655 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 399739014656 trmE is a tRNA modification GTPase; Region: trmE; cd04164 399739014657 G1 box; other site 399739014658 GTP/Mg2+ binding site [chemical binding]; other site 399739014659 Switch I region; other site 399739014660 G2 box; other site 399739014661 Switch II region; other site 399739014662 G3 box; other site 399739014663 G4 box; other site 399739014664 G5 box; other site 399739014665 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 399739014666 membrane protein insertase; Provisional; Region: PRK01318 399739014667 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 399739014668 hypothetical protein; Provisional; Region: PRK14371 399739014669 ribonuclease P; Reviewed; Region: rnpA; PRK00396 399739014670 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399